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Protein

Probable alpha-L-glutamate ligase

Gene

rimK

Organism
Xylella fastidiosa (strain M12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Cofactori

Mg2+UniRule annotation, Mn2+UniRule annotationNote: Binds 2 magnesium or manganese ions per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei141 – 1411ATPUniRule annotation
Binding sitei187 – 1871ATPUniRule annotation
Metal bindingi248 – 2481Magnesium or manganese 1UniRule annotation
Metal bindingi260 – 2601Magnesium or manganese 1UniRule annotation
Metal bindingi260 – 2601Magnesium or manganese 2UniRule annotation
Metal bindingi262 – 2621Magnesium or manganese 2UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi178 – 1792ATPUniRule annotation
Nucleotide bindingi211 – 2133ATPUniRule annotation

GO - Molecular functioni

  1. acid-amino acid ligase activity Source: UniProtKB-HAMAP
  2. ATP binding Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP
  4. manganese ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. cellular protein modification process Source: InterPro
  2. translation Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciXFAS405440:GH0D-2145-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable alpha-L-glutamate ligaseUniRule annotation (EC:6.3.2.-UniRule annotation)
Gene namesi
Name:rimKUniRule annotation
Ordered Locus Names:Xfasm12_2103
OrganismiXylella fastidiosa (strain M12)
Taxonomic identifieri405440 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
ProteomesiUP000008539 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 301301Probable alpha-L-glutamate ligasePRO_1000146955Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi405440.Xfasm12_2103.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini104 – 287184ATP-graspUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the RimK family.UniRule annotation
Contains 1 ATP-grasp domain.UniRule annotation

Phylogenomic databases

eggNOGiCOG0189.
HOGENOMiHOG000293092.
KOiK05844.
OMAiCYMNITS.
OrthoDBiEOG6DZDX8.

Family and domain databases

Gene3Di3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
HAMAPiMF_01552. RimK.
InterProiIPR011761. ATP-grasp.
IPR013651. ATP-grasp_RimK-type.
IPR013816. ATP_grasp_subdomain_2.
IPR016185. PreATP-grasp_dom.
IPR023533. Ribosomal_S6_modifier_RimK.
IPR004666. RpS6_RimK/Lys_biosynth_LsyX.
[Graphical view]
PfamiPF08443. RimK. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00768. rimK_fam. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B0U5E6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKLAILSRNS KLYSTRRLVE VARMRGHTVR ILDPLRCYMR IVVGDFSMHY
60 70 80 90 100
KGKPIDGYHA VIPRIGVSVT HYATAVLRQF ELMGTYSPNP SDAILRSRDK
110 120 130 140 150
LRAHQLLAAQ GIDMPMTVFG DNPDDTQDLL SMLGPPPHVV KLNEGAQGKG
160 170 180 190 200
VILSEKNSAS RGLVEALRGL YANFLVQEFI SEADSADLRC FVVGNQVVAT
210 220 230 240 250
MRRQAADGDF RSNLHLGGSA TAATASEEEQ EVAVRSAHAL GLTVAGVDLI
260 270 280 290 300
RSRRGPLVLE VNPTPGLEGI EATSGTNVAI KIVHHVEEML ATICSSNICQ

P
Length:301
Mass (Da):32,678
Last modified:April 7, 2008 - v1
Checksum:i902ECC728AA0C77F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000941 Genomic DNA. Translation: ACA12964.1.
RefSeqiYP_001776594.1. NC_010513.1.

Genome annotation databases

EnsemblBacteriaiACA12964; ACA12964; Xfasm12_2103.
KEGGixfm:Xfasm12_2103.
PATRICi24141059. VBIXylFas124301_2467.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000941 Genomic DNA. Translation: ACA12964.1.
RefSeqiYP_001776594.1. NC_010513.1.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi405440.Xfasm12_2103.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACA12964; ACA12964; Xfasm12_2103.
KEGGixfm:Xfasm12_2103.
PATRICi24141059. VBIXylFas124301_2467.

Phylogenomic databases

eggNOGiCOG0189.
HOGENOMiHOG000293092.
KOiK05844.
OMAiCYMNITS.
OrthoDBiEOG6DZDX8.

Enzyme and pathway databases

BioCyciXFAS405440:GH0D-2145-MONOMER.

Family and domain databases

Gene3Di3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
HAMAPiMF_01552. RimK.
InterProiIPR011761. ATP-grasp.
IPR013651. ATP-grasp_RimK-type.
IPR013816. ATP_grasp_subdomain_2.
IPR016185. PreATP-grasp_dom.
IPR023533. Ribosomal_S6_modifier_RimK.
IPR004666. RpS6_RimK/Lys_biosynth_LsyX.
[Graphical view]
PfamiPF08443. RimK. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00768. rimK_fam. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Whole genome sequences of two Xylella fastidiosa strains (M12 and M23) causing almond leaf scorch disease in California."
    Chen J., Xie G., Han S., Chertkov O., Sims D., Civerolo E.L.
    J. Bacteriol. 192:4534-4534(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: M12.

Entry informationi

Entry nameiRIMK_XYLFM
AccessioniPrimary (citable) accession number: B0U5E6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2009
Last sequence update: April 7, 2008
Last modified: March 31, 2015
This is version 52 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

Documents

  1. 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.