Escherichia coli K-12 substr. MG1655 Polypeptide: protein involved in plasmid replication

Gene: hofB Accession Numbers: EG12106 (EcoCyc), b0107, ECK0106

Synonyms: hopB

Regulation Summary Diagram: ?

Regulation summary diagram for hofB

A hopB mutant shows defects in plasmid replication and maintenance [Niki88]. A hopB mutant does not exhibit any obvious growth defect or other phenotype [Niki88, Whitchurch94].

HopB has been described as a putative integral membrane protein. HopB has similarity to conserved eubacterial proteins [Whitchurch94]. HopB has similarity to a type IV pilus assembly factor of Pseudomonas aeruginosa [Sauvonnet00].

Hop: "host function of plasmid maintenance" [Niki88].

Regulation has been described [Sauvonnet00]. Only low-level transcription is observed [Sauvonnet00].

Locations: cytosol

Map Position: [115,714 <- 117,099] (2.49 centisomes, 9°)
Length: 1386 bp / 461 aa

Molecular Weight of Polypeptide: 50.615 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0000370 , DIP:DIP-9919N , EchoBASE:EB2030 , EcoGene:EG12106 , EcoliWiki:b0107 , ModBase:P36645 , OU-Microarray:b0107 , PortEco:hofB , PR:PRO_000022910 , Pride:P36645 , Protein Model Portal:P36645 , RefSeq:NP_414649 , RegulonDB:EG12106 , SMR:P36645 , String:511145.b0107 , UniProt:P36645

Relationship Links: InterPro:IN-FAMILY:IPR001482 , InterPro:IN-FAMILY:IPR003593 , InterPro:IN-FAMILY:IPR007831 , InterPro:IN-FAMILY:IPR027417 , Pfam:IN-FAMILY:PF00437 , Pfam:IN-FAMILY:PF05157 , Prosite:IN-FAMILY:PS00662 , Smart:IN-FAMILY:SM00382

Genetic Regulation Schematic: ?

Genetic regulation schematic for hofB

GO Terms:

Biological Process: GO:0006276 - plasmid maintenance Inferred from experiment [Niki88]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11a]
GO:0005524 - ATP binding Inferred by computational analysis [UniProtGOA11a, GOA01a]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: cell structure pilus
extrachromosomal plasmid related

Essentiality data for hofB knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Sequence Features

Protein sequence of protein involved in plasmid replication with features indicated

Feature Class Location Citations Comment
Sequence-Conflict 8 -> 9
[Whitchurch94, UniProt10a]
UniProt: (in Ref. 1; AAC36924);
Sequence-Conflict 35
[Whitchurch94, UniProt10a]
UniProt: (in Ref. 1; AAC36924);
Nucleotide-Phosphate-Binding-Region 222 -> 229
UniProt: ATP; Non-Experimental Qualifier: potential;
Sequence-Conflict 457 -> 461
[Whitchurch94, UniProt10a]
UniProt: (in Ref. 1; AAC36924);

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


10/20/97 Gene b0107 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12106; confirmed by SwissProt match.


Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Niki88: Niki H, Ichinose C, Ogura T, Mori H, Morita M, Hasegawa M, Kusukawa N, Hiraga S (1988). "Chromosomal genes essential for stable maintenance of the mini-F plasmid in Escherichia coli." J Bacteriol 170(11);5272-8. PMID: 3053654

Sauvonnet00: Sauvonnet N, Gounon P, Pugsley AP (2000). "PpdD type IV pilin of Escherichia coli K-12 can Be assembled into pili in Pseudomonas aeruginosa." J Bacteriol 182(3);848-54. PMID: 10633126

UniProt10: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Whitchurch94: Whitchurch CB, Mattick JS (1994). "Escherichia coli contains a set of genes homologous to those involved in protein secretion, DNA uptake and the assembly of type-4 fimbriae in other bacteria." Gene 150(1);9-15. PMID: 7959070

Other References Related to Gene Regulation

Cameron06: Cameron AD, Redfield RJ (2006). "Non-canonical CRP sites control competence regulons in Escherichia coli and many other gamma-proteobacteria." Nucleic Acids Res 34(20);6001-14. PMID: 17068078

Huerta03: Huerta AM, Collado-Vides J (2003). "Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals." J Mol Biol 333(2);261-78. PMID: 14529615

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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