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Protein

Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD

Gene

arnD

Organism
Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the deformylation of 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol to 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol. The modified arabinose is attached to lipid A and is required for resistance to polymyxin and cationic antimicrobial peptides (Probable).1 Publication

Catalytic activityi

4-deoxy-4-formamido-beta-L-arabinose di-trans,poly-cis-undecaprenyl phosphate + H2O = 4-amino-4-deoxy-alpha-L-arabinose di-trans,poly-cis-undecaprenyl phosphate + formate.UniRule annotation

Pathway:i4-amino-4-deoxy-alpha-L-arabinose undecaprenyl phosphate biosynthesis

This protein is involved in step 2 of the subpathway that synthesizes 4-amino-4-deoxy-alpha-L-arabinose undecaprenyl phosphate from UDP-4-deoxy-4-formamido-beta-L-arabinose and undecaprenyl phosphate.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. Undecaprenyl-phosphate 4-deoxy-4-formamido-L-arabinose transferase (arnC)
  2. Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD (arnD)
This subpathway is part of the pathway 4-amino-4-deoxy-alpha-L-arabinose undecaprenyl phosphate biosynthesis, which is itself part of Glycolipid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 4-amino-4-deoxy-alpha-L-arabinose undecaprenyl phosphate from UDP-4-deoxy-4-formamido-beta-L-arabinose and undecaprenyl phosphate, the pathway 4-amino-4-deoxy-alpha-L-arabinose undecaprenyl phosphate biosynthesis and in Glycolipid biosynthesis.

Pathway:ilipopolysaccharide biosynthesis

This protein is involved in the pathway lipopolysaccharide biosynthesis, which is part of Bacterial outer membrane biogenesis.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway lipopolysaccharide biosynthesis and in Bacterial outer membrane biogenesis.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Antibiotic resistance, Lipid A biosynthesis, Lipid biosynthesis, Lipid metabolism, Lipopolysaccharide biosynthesis

Enzyme and pathway databases

BioCyciSENT99287:GCTI-2315-MONOMER.
UniPathwayiUPA00030.
UPA00036; UER00496.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnDUniRule annotation (EC:3.5.1.n3UniRule annotation)
Gene namesi
Name:arnDUniRule annotation
Synonyms:pbgP4, pmrJ
Ordered Locus Names:STM2300
OrganismiSalmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
Taxonomic identifieri99287 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
ProteomesiUP000001014 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 299299Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnDPRO_0000169177Add
BLAST

Proteomic databases

PRIDEiO52326.

Expressioni

Inductioni

Induced by BasR.1 Publication

Interactioni

Protein-protein interaction databases

STRINGi99287.STM2300.

Structurei

3D structure databases

ProteinModelPortaliO52326.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 260259NodB homologyUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the polysaccharide deacetylase family. ArnD deformylase subfamily.UniRule annotation
Contains 1 NodB homology domain.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000261199.
KOiK13014.
OMAiKFLWKML.
OrthoDBiEOG6423D0.
PhylomeDBiO52326.

Family and domain databases

Gene3Di3.20.20.370. 2 hits.
HAMAPiMF_01870. ArnD.
InterProiIPR023557. ArnD.
IPR011330. Glyco_hydro/deAcase_b/a-brl.
IPR002509. Polysac_deacetylase.
[Graphical view]
PfamiPF01522. Polysacc_deac_1. 1 hit.
[Graphical view]
SUPFAMiSSF88713. SSF88713. 2 hits.
PROSITEiPS51677. NODB. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O52326-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTKVGLRIDV DTLRGTREGV PRLLATLHRH GVQASFFFSV GPDNMGRHLW
60 70 80 90 100
RLIKPRFLWK MLRSNAASLY GWDILLAGTA WPGKNIGNAN AGIIRETATY
110 120 130 140 150
HETGLHAWDH HAWQTHSGHW SIRQLEEDIA RGITALEAII GKPVTCSAAA
160 170 180 190 200
GWRADGRVVR AKESFNLRYN SDCRGTTLFR PLLMPGQTGT PQIPVTLPTW
210 220 230 240 250
DEVIGPAVQA QSFNTWIISR MLQDKGTPVY TIHAEVEGIV HQPLFEDLLV
260 270 280 290
RARDAGITFC PLGELLPASP ESLPLGQIVR GHIPGREGWL GCQQAASAS
Length:299
Mass (Da):33,010
Last modified:June 1, 1998 - v1
Checksum:i5A33F6D1D494859F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF036677 Genomic DNA. Translation: AAC04773.1.
AE006468 Genomic DNA. Translation: AAL21201.1.
RefSeqiNP_461242.1. NC_003197.1.
WP_000169761.1. NC_003197.1.

Genome annotation databases

EnsemblBacteriaiAAL21201; AAL21201; STM2300.
GeneIDi1253822.
KEGGistm:STM2300.
PATRICi32383211. VBISalEnt20916_2435.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF036677 Genomic DNA. Translation: AAC04773.1.
AE006468 Genomic DNA. Translation: AAL21201.1.
RefSeqiNP_461242.1. NC_003197.1.
WP_000169761.1. NC_003197.1.

3D structure databases

ProteinModelPortaliO52326.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi99287.STM2300.

Proteomic databases

PRIDEiO52326.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAL21201; AAL21201; STM2300.
GeneIDi1253822.
KEGGistm:STM2300.
PATRICi32383211. VBISalEnt20916_2435.

Phylogenomic databases

HOGENOMiHOG000261199.
KOiK13014.
OMAiKFLWKML.
OrthoDBiEOG6423D0.
PhylomeDBiO52326.

Enzyme and pathway databases

UniPathwayiUPA00030.
UPA00036; UER00496.
BioCyciSENT99287:GCTI-2315-MONOMER.

Family and domain databases

Gene3Di3.20.20.370. 2 hits.
HAMAPiMF_01870. ArnD.
InterProiIPR023557. ArnD.
IPR011330. Glyco_hydro/deAcase_b/a-brl.
IPR002509. Polysac_deacetylase.
[Graphical view]
PfamiPF01522. Polysacc_deac_1. 1 hit.
[Graphical view]
SUPFAMiSSF88713. SSF88713. 2 hits.
PROSITEiPS51677. NODB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "PmrA-PmrB-regulated genes necessary for 4-aminoarabinose lipid A modification and polymyxin resistance."
    Gunn J.S., Lim K.B., Krueger J., Kim K., Guo L., Hackett M., Miller S.I.
    Mol. Microbiol. 27:1171-1182(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 14028s / SGSG 2262.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: LT2 / SGSC1412 / ATCC 700720.
  3. "Molecular characterization of the PmrA regulon."
    Woesten M.M.S.M., Groisman E.A.
    J. Biol. Chem. 274:27185-27190(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
    Strain: ATCC 14028s / SGSG 2262.
  4. "Genetic and functional analysis of a PmrA-PmrB-regulated locus necessary for lipopolysaccharide modification, antimicrobial peptide resistance, and oral virulence of Salmonella enterica serovar typhimurium."
    Gunn J.S., Ryan S.S., Van Velkinburgh J.C., Ernst R.K., Miller S.I.
    Infect. Immun. 68:6139-6146(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION IN POLYMYXIN RESISTANCE.
    Strain: ATCC 14028s / SGSG 2262.

Entry informationi

Entry nameiARND_SALTY
AccessioniPrimary (citable) accession number: O52326
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: June 1, 1998
Last modified: July 22, 2015
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.