Escherichia coli K-12 substr. MG1655 Polypeptide: lipoprotein involved in cell division

Gene: nlpI Accession Numbers: EG12371 (EcoCyc), b3163, ECK3151

Synonyms: yhbM

Regulation Summary Diagram: ?

Regulation summary diagram for nlpI

NlpI is a lipoprotein that appears to be involved in cell division [Ohara99]. NlpI interacts with the periplasmic protease Prc and may be activated by protease processing [Tadokoro04]. NlpI is involved in the virulence of the invasive E. coli strain LF82 [Barnich04].

An nlpI mutant shows a heat-sensitive cell filamentation phenotype and is more sensitive to osmotic stress than wild type. A strain overproducing NlpI shows morphological abnormalities indicative of cell division defects [Ohara99]. An nlpI mutant (nlpI::Tn5) is associated with increased production of outer membrane vesicles [McBroom07] - a phenotype that is associated with improved bacterial survival under stress [Manning11].

A crystal structure of NlpI was determined at 1.98 Å resolution [Wilson05].

Regulation has been described [Bylund01].

Locations: cytosol, inner membrane

Map Position: [3,306,062 <- 3,306,946] (71.26 centisomes, 257°)
Length: 885 bp / 294 aa

Molecular Weight of Polypeptide: 33.621 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0010395 , DIP:DIP-48051N , EchoBASE:EB2274 , EcoGene:EG12371 , EcoliWiki:b3163 , ModBase:P0AFB1 , OU-Microarray:b3163 , PortEco:nlpI , PR:PRO_000023396 , Pride:P0AFB1 , Protein Model Portal:P0AFB1 , RefSeq:NP_417632 , RegulonDB:EG12371 , SMR:P0AFB1 , String:511145.b3163 , Swiss-Model:P0AFB1 , UniProt:P0AFB1

Relationship Links: InterPro:IN-FAMILY:IPR001440 , InterPro:IN-FAMILY:IPR011990 , InterPro:IN-FAMILY:IPR013026 , InterPro:IN-FAMILY:IPR013105 , InterPro:IN-FAMILY:IPR019734 , InterPro:IN-FAMILY:IPR023605 , PDB:Structure:1XNF , Pfam:IN-FAMILY:PF00515 , Pfam:IN-FAMILY:PF07719 , Prosite:IN-FAMILY:PS50005 , Prosite:IN-FAMILY:PS50293 , Prosite:IN-FAMILY:PS51257 , Smart:IN-FAMILY:SM00028

GO Terms:

Biological Process: GO:0051301 - cell division Inferred from experiment Inferred by computational analysis [UniProtGOA11a, Ohara99]
GO:0007049 - cell cycle Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005829 - cytosol Inferred from experiment [Ishihama08]
GO:0005886 - plasma membrane Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]

MultiFun Terms: cell processes cell division

Essentiality data for nlpI 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]

Last-Curated ? 06-Jan-2006 by Keseler I , SRI International

Sequence Features

Protein sequence of lipoprotein involved in cell division with features indicated

Feature Class Location Citations Comment
Signal-Sequence 1 -> 18
Lipid-Binding-Site 19
[Ohara99, UniProt15]
UniProt: N-palmitoyl cysteine.
Chain 19 -> 294
UniProt: Lipoprotein nlpI;
Repeat 62 -> 95
[Wilson05, UniProt09]
UniProt: TPR 1;
Repeat 96 -> 129
[Wilson05, UniProt09]
UniProt: TPR 2;
Mutagenesis-Variant 103
[Tadokoro04, UniProt11a]
UniProt: Loss of interaction with Prc and IbpB leading to thermosensitivity.
Repeat 234 -> 267
[Wilson05, UniProt11a]
UniProt: TPR 3.
Mutagenesis-Variant 282 -> 294
[Tadokoro04, UniProt11a]
UniProt: Loss of activity leading to thermosensitivity.
Mutagenesis-Variant 283 -> 294
[Tadokoro04, UniProt11a]
UniProt: No phenotype.
Mutagenesis-Variant 284 -> 294
[Tadokoro04, UniProt11a]
UniProt: No phenotype.

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


10/20/97 Gene b3163 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12371; 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

Barnich04: Barnich N, Bringer MA, Claret L, Darfeuille-Michaud A (2004). "Involvement of lipoprotein NlpI in the virulence of adherent invasive Escherichia coli strain LF82 isolated from a patient with Crohn's disease." Infect Immun 72(5);2484-93. PMID: 15102755

Bylund01: Bylund GO, Lovgren JM, Wikstrom PM (2001). "Characterization of mutations in the metY-nusA-infB operon that suppress the slow growth of a DeltarimM mutant." J Bacteriol 183(20);6095-106. PMID: 11567010

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

Ishihama08: Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008). "Protein abundance profiling of the Escherichia coli cytosol." BMC Genomics 9;102. PMID: 18304323

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

Manning11: Manning AJ, Kuehn MJ (2011). "Contribution of bacterial outer membrane vesicles to innate bacterial defense." BMC Microbiol 11;258. PMID: 22133164

McBroom07: McBroom AJ, Kuehn MJ (2007). "Release of outer membrane vesicles by Gram-negative bacteria is a novel envelope stress response." Mol Microbiol 63(2);545-58. PMID: 17163978

Ohara99: Ohara M, Wu HC, Sankaran K, Rick PD (1999). "Identification and characterization of a new lipoprotein, NlpI, in Escherichia coli K-12." J Bacteriol 181(14);4318-25. PMID: 10400590

Tadokoro04: Tadokoro A, Hayashi H, Kishimoto T, Makino Y, Fujisaki S, Nishimura Y (2004). "Interaction of the Escherichia coli lipoprotein NlpI with periplasmic Prc (Tsp) protease." J Biochem (Tokyo) 135(2);185-91. PMID: 15047720

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt11a: UniProt Consortium (2011). "UniProt version 2011-11 released on 2011-11-22 00:00:00." Database.

UniProt15: UniProt Consortium (2015). "UniProt version 2015-01 released on 2015-01-16 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

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

Wilson05: Wilson CG, Kajander T, Regan L (2005). "The crystal structure of NlpI. A prokaryotic tetratricopeptide repeat protein with a globular fold." FEBS J 272(1);166-79. PMID: 15634341

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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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