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Protein

Regulator of nucleoside diphosphate kinase

Gene

rnk

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May act as an anti-Gre factor. Regulates the level of the nucleoside diphosphate kinase Ndk.UniRule annotation2 Publications

GO - Molecular functioni

GO - Biological processi

  • biological regulation Source: EcoCyc
  • regulation of DNA-templated transcription, elongation Source: InterPro
Complete GO annotation...

Enzyme and pathway databases

BioCyciEcoCyc:G6337-MONOMER.
ECOL316407:JW0602-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Regulator of nucleoside diphosphate kinaseUniRule annotation
Gene namesi
Name:rnkUniRule annotation
Ordered Locus Names:b0610, JW0602
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12637. rnk.

Pathology & Biotechi

Disruption phenotypei

Mutant shows a significant reduction in the level of Ndk.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 136136Regulator of nucleoside diphosphate kinasePRO_0000097386Add
BLAST

Proteomic databases

EPDiP0AFW4.
PaxDbiP0AFW4.

Interactioni

Subunit structurei

Interacts with the RNA polymerase.UniRule annotation1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
lrpP0ACJ04EBI-553769,EBI-1113316
ybdMP771745EBI-553769,EBI-1118992

Protein-protein interaction databases

BioGridi4259900. 11 interactions.
DIPiDIP-48048N.
IntActiP0AFW4. 28 interactions.
MINTiMINT-1300098.
STRINGi511145.b0610.

Structurei

Secondary structure

1
136
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi7 – 93Combined sources
Helixi10 – 2112Combined sources
Helixi23 – 253Combined sources
Helixi29 – 3911Combined sources
Beta strandi42 – 443Combined sources
Helixi46 – 483Combined sources
Beta strandi59 – 646Combined sources
Turni65 – 673Combined sources
Beta strandi70 – 767Combined sources
Helixi78 – 803Combined sources
Turni84 – 863Combined sources
Beta strandi87 – 893Combined sources
Helixi93 – 986Combined sources
Beta strandi106 – 1116Combined sources
Turni112 – 1143Combined sources
Beta strandi115 – 12612Combined sources
Turni128 – 1325Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3BMBX-ray1.91A/B1-136[»]
ProteinModelPortaliP0AFW4.
SMRiP0AFW4. Positions 2-136.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0AFW4.

Family & Domainsi

Domaini

Contains a short N-terminal coiled-coil domain and a C-terminal globular domain.1 Publication

Sequence similaritiesi

Belongs to the Rnk family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105NXH. Bacteria.
COG0782. LUCA.
HOGENOMiHOG000208216.
InParanoidiP0AFW4.
KOiK06140.
OMAiLAVEYQP.
OrthoDBiEOG686NQ9.
PhylomeDBiP0AFW4.

Family and domain databases

Gene3Di3.10.50.30. 1 hit.
HAMAPiMF_00954. Rnk.
InterProiIPR028625. Rnk.
IPR029462. Rnk_N.
IPR001437. Tscrpt_elong_fac_GreA/B_C.
[Graphical view]
PfamiPF01272. GreA_GreB. 1 hit.
PF14760. Rnk_N. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0AFW4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRPTIIIND LDAERIDILL EQPAYAGLPI ADALNAELDR AQMCSPEEMP
60 70 80 90 100
HDVVTMNSRV KFRNLSDGEV RVRTLVYPAK MTDSNTQLSV MAPVGAALLG
110 120 130
LRVGDSIHWE LPGGVATHLE VLELEYQPEA AGDYLL
Length:136
Mass (Da):14,927
Last modified:December 20, 2005 - v1
Checksum:i7043926623BA5E1E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L37900 Genomic DNA. Translation: AAC36933.1.
U82598 Genomic DNA. Translation: AAB40810.1.
U00096 Genomic DNA. Translation: AAC73711.1.
AP009048 Genomic DNA. Translation: BAA35239.1.
PIRiI57917.
RefSeqiNP_415143.1. NC_000913.3.
WP_000089731.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73711; AAC73711; b0610.
BAA35239; BAA35239; BAA35239.
GeneIDi947546.
KEGGiecj:JW0602.
eco:b0610.
PATRICi32116400. VBIEscCol129921_0640.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L37900 Genomic DNA. Translation: AAC36933.1.
U82598 Genomic DNA. Translation: AAB40810.1.
U00096 Genomic DNA. Translation: AAC73711.1.
AP009048 Genomic DNA. Translation: BAA35239.1.
PIRiI57917.
RefSeqiNP_415143.1. NC_000913.3.
WP_000089731.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3BMBX-ray1.91A/B1-136[»]
ProteinModelPortaliP0AFW4.
SMRiP0AFW4. Positions 2-136.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259900. 11 interactions.
DIPiDIP-48048N.
IntActiP0AFW4. 28 interactions.
MINTiMINT-1300098.
STRINGi511145.b0610.

Proteomic databases

EPDiP0AFW4.
PaxDbiP0AFW4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73711; AAC73711; b0610.
BAA35239; BAA35239; BAA35239.
GeneIDi947546.
KEGGiecj:JW0602.
eco:b0610.
PATRICi32116400. VBIEscCol129921_0640.

Organism-specific databases

EchoBASEiEB2518.
EcoGeneiEG12637. rnk.

Phylogenomic databases

eggNOGiENOG4105NXH. Bacteria.
COG0782. LUCA.
HOGENOMiHOG000208216.
InParanoidiP0AFW4.
KOiK06140.
OMAiLAVEYQP.
OrthoDBiEOG686NQ9.
PhylomeDBiP0AFW4.

Enzyme and pathway databases

BioCyciEcoCyc:G6337-MONOMER.
ECOL316407:JW0602-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0AFW4.
PROiP0AFW4.

Family and domain databases

Gene3Di3.10.50.30. 1 hit.
HAMAPiMF_00954. Rnk.
InterProiIPR028625. Rnk.
IPR029462. Rnk_N.
IPR001437. Tscrpt_elong_fac_GreA/B_C.
[Graphical view]
PfamiPF01272. GreA_GreB. 1 hit.
PF14760. Rnk_N. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The Escherichia coli genes sspA and rnk can functionally replace the Pseudomonas aeruginosa alginate regulatory gene algR2."
    Schlictman D., Shankar S., Chakrabarty A.M.
    Mol. Microbiol. 16:309-320(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], GENE NAME.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12.
  3. "Sequence of minutes 4-25 of Escherichia coli."
    Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W.
    Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases
    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.
  6. "Regulation of nucleoside diphosphate kinase and an alternative kinase in Escherichia coli: role of the sspA and rnk genes in nucleoside triphosphate formation."
    Shankar S., Schlictman D., Chakrabarty A.M.
    Mol. Microbiol. 17:935-943(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
  7. "Crystal structure of Escherichia coli Rnk, a new RNA polymerase-interacting protein."
    Lamour V., Rutherford S.T., Kuznedelov K., Ramagopal U.A., Gourse R.L., Severinov K., Darst S.A.
    J. Mol. Biol. 383:367-379(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.91 ANGSTROMS), FUNCTION, INTERACTION WITH RNA POLYMERASE, DOMAIN.

Entry informationi

Entry nameiRNK_ECOLI
AccessioniPrimary (citable) accession number: P0AFW4
Secondary accession number(s): P40679
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: December 20, 2005
Last modified: March 16, 2016
This is version 81 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

Can restore alginate synthesis and Ndk activity in the aglQ mutant of P.aeruginosa.1 Publication

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.