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Protein

Probable transcriptional regulator PhnF

Gene

phnF

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Belongs to an operon involved in alkylphosphonate uptake and C-P lyase. Exact function not known. By similarity could be a transcriptional regulator.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi38 – 5720H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Alkylphosphonate uptake, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10715-MONOMER.
ECOL316407:JW4063-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable transcriptional regulator PhnF
Gene namesi
Name:phnF
Ordered Locus Names:b4102, JW4063
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10715. phnF.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 241241Probable transcriptional regulator PhnFPRO_0000050667Add
BLAST

Proteomic databases

PaxDbiP16684.

Interactioni

Protein-protein interaction databases

BioGridi4263093. 9 interactions.
IntActiP16684. 2 interactions.
STRINGi511145.b4102.

Structurei

Secondary structure

1
241
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi87 – 937Combined sources
Beta strandi104 – 1129Combined sources
Helixi115 – 1217Combined sources
Beta strandi127 – 13812Combined sources
Beta strandi141 – 15111Combined sources
Helixi153 – 1553Combined sources
Helixi156 – 1594Combined sources
Helixi167 – 1759Combined sources
Beta strandi179 – 19012Combined sources
Helixi194 – 1996Combined sources
Beta strandi206 – 21611Combined sources
Beta strandi223 – 2319Combined sources
Turni232 – 2343Combined sources
Beta strandi235 – 2406Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2FA1X-ray1.70A/B85-241[»]
ProteinModelPortaliP16684.
SMRiP16684. Positions 14-241.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP16684.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini11 – 7868HTH gntR-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 HTH gntR-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4107RJJ. Bacteria.
COG2188. LUCA.
HOGENOMiHOG000228717.
InParanoidiP16684.
KOiK02043.
OMAiYPLHANT.
OrthoDBiEOG689HVZ.
PhylomeDBiP16684.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.40.1410.10. 1 hit.
InterProiIPR028978. Chorismate_lyase_/UTRA_dom.
IPR012702. CP_lyase_PhnF.
IPR000524. Tscrpt_reg_HTH_GntR.
IPR011663. UTRA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00392. GntR. 1 hit.
PF07702. UTRA. 1 hit.
[Graphical view]
PRINTSiPR00035. HTHGNTR.
SMARTiSM00345. HTH_GNTR. 1 hit.
SM00866. UTRA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF64288. SSF64288. 1 hit.
TIGRFAMsiTIGR02325. C_P_lyase_phnF. 1 hit.
PROSITEiPS50949. HTH_GNTR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P16684-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MHLSTHPTSY PTRYQEIAAK LEQELRQHYR CGDYLPAEQQ LAARFEVNRH
60 70 80 90 100
TLRRAIDQLV EKGWVQRRQG VGVLVLMRPF DYPLNAQARF SQNLLDQGSH
110 120 130 140 150
PTSEKLLSVL RPASGHVADA LGITEGENVI HLRTLRRVNG VALCLIDHYF
160 170 180 190 200
ADLTLWPTLQ RFDSGSLHDF LREQTGIALR RSQTRISARR AQAKECQRLE
210 220 230 240
IPNMSPLLCV RTLNHRDGES SPAEYSVSLT RADMIEFTME H
Length:241
Mass (Da):27,621
Last modified:August 1, 1990 - v1
Checksum:iF1A24763A84D574A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05260 Genomic DNA. Translation: AAA24343.1.
D90227 Genomic DNA. Translation: BAA14266.1.
U14003 Genomic DNA. Translation: AAA97001.1.
U00096 Genomic DNA. Translation: AAC77063.1.
AP009048 Genomic DNA. Translation: BAE78105.1.
PIRiG35718.
RefSeqiNP_418526.1. NC_000913.3.
WP_001295387.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC77063; AAC77063; b4102.
BAE78105; BAE78105; BAE78105.
GeneIDi948617.
KEGGiecj:JW4063.
eco:b4102.
PATRICi32123763. VBIEscCol129921_4230.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05260 Genomic DNA. Translation: AAA24343.1.
D90227 Genomic DNA. Translation: BAA14266.1.
U14003 Genomic DNA. Translation: AAA97001.1.
U00096 Genomic DNA. Translation: AAC77063.1.
AP009048 Genomic DNA. Translation: BAE78105.1.
PIRiG35718.
RefSeqiNP_418526.1. NC_000913.3.
WP_001295387.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2FA1X-ray1.70A/B85-241[»]
ProteinModelPortaliP16684.
SMRiP16684. Positions 14-241.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4263093. 9 interactions.
IntActiP16684. 2 interactions.
STRINGi511145.b4102.

Proteomic databases

PaxDbiP16684.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC77063; AAC77063; b4102.
BAE78105; BAE78105; BAE78105.
GeneIDi948617.
KEGGiecj:JW4063.
eco:b4102.
PATRICi32123763. VBIEscCol129921_4230.

Organism-specific databases

EchoBASEiEB0709.
EcoGeneiEG10715. phnF.

Phylogenomic databases

eggNOGiENOG4107RJJ. Bacteria.
COG2188. LUCA.
HOGENOMiHOG000228717.
InParanoidiP16684.
KOiK02043.
OMAiYPLHANT.
OrthoDBiEOG689HVZ.
PhylomeDBiP16684.

Enzyme and pathway databases

BioCyciEcoCyc:EG10715-MONOMER.
ECOL316407:JW4063-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP16684.
PROiP16684.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
3.40.1410.10. 1 hit.
InterProiIPR028978. Chorismate_lyase_/UTRA_dom.
IPR012702. CP_lyase_PhnF.
IPR000524. Tscrpt_reg_HTH_GntR.
IPR011663. UTRA.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00392. GntR. 1 hit.
PF07702. UTRA. 1 hit.
[Graphical view]
PRINTSiPR00035. HTHGNTR.
SMARTiSM00345. HTH_GNTR. 1 hit.
SM00866. UTRA. 1 hit.
[Graphical view]
SUPFAMiSSF46785. SSF46785. 1 hit.
SSF64288. SSF64288. 1 hit.
TIGRFAMsiTIGR02325. C_P_lyase_phnF. 1 hit.
PROSITEiPS50949. HTH_GNTR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular biology of carbon-phosphorus bond cleavage. Cloning and sequencing of the phn (psiD) genes involved in alkylphosphonate uptake and C-P lyase activity in Escherichia coli B."
    Chen C.-M., Ye Q.-Z., Zhu Z., Wanner B.L., Walsh C.T.
    J. Biol. Chem. 265:4461-4471(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: B.
  2. "Molecular analysis of the cryptic and functional phn operons for phosphonate use in Escherichia coli K-12."
    Makino K., Kim S.K., Shinagawa H., Amemura M., Nakata A.
    J. Bacteriol. 173:2665-2672(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12.
  3. "Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes."
    Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L., Blattner F.R.
    Nucleic Acids Res. 23:2105-2119(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.

Entry informationi

Entry nameiPHNF_ECOLI
AccessioniPrimary (citable) accession number: P16684
Secondary accession number(s): Q2M6K1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: January 20, 2016
This is version 127 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The sequence shown is that of strains K12 and B.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.