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Protein

Ribosomal protein S12 methylthiotransferase RimO

Gene

rimO

Organism
Meiothermus ruber (strain ATCC 35948 / DSM 1279 / VKM B-1258 / 21) (Thermus ruber)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12.UniRule annotation

Catalytic activityi

L-aspartate-[ribosomal protein S12] + sulfur-(sulfur carrier) + 2 S-adenosyl-L-methionine = 3-methylthio-L-aspartate-[ribosomal protein S12] + S-adenosyl-L-homocysteine + (sulfur carrier) + L-methionine + 5'-deoxyadenosine.UniRule annotationSAAS annotation

Cofactori

[4Fe-4S] clusterUniRule annotationNote: Binds 2 [4Fe-4S] clusters. One cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi12 – 121Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi48 – 481Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi77 – 771Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi143 – 1431Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi147 – 1471Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi150 – 1501Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation

GO - Molecular functioni

  1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-HAMAP
  2. iron ion binding Source: UniProtKB-HAMAP
  3. transferase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid Source: UniProtKB-HAMAP
  2. RNA modification Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein, Ribosomal proteinImported, TransferaseUniRule annotationSAAS annotation

Keywords - Ligandi

4Fe-4SUniRule annotationSAAS annotation, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionineUniRule annotationSAAS annotation

Enzyme and pathway databases

BioCyciMRUB504728:GI6U-1086-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal protein S12 methylthiotransferase RimOUniRule annotationSAAS annotation (EC:2.8.4.4UniRule annotationSAAS annotation)
Short name:
S12 MTTaseUniRule annotation
Short name:
S12 methylthiotransferaseUniRule annotation
Alternative name(s):
Ribosomal protein S12 (aspartate-C(3))-methylthiotransferaseUniRule annotation
Ribosome maturation factor RimOUniRule annotation
Gene namesi
Name:rimOUniRule annotationImported
ORF Names:K649_04960Imported
OrganismiMeiothermus ruber (strain ATCC 35948 / DSM 1279 / VKM B-1258 / 21) (Thermus ruber)Imported
Taxonomic identifieri504728 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeMeiothermus
ProteomesiUP000013026 Componenti: Chromosome

Subcellular locationi

  1. Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

  1. ribosome Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Structurei

3D structure databases

ProteinModelPortaliD3PQU4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 113111MTTase N-terminalUniRule annotationAdd
BLAST
Domaini369 – 43769TRAMUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the methylthiotransferase family. RimO subfamily.UniRule annotation
Contains 1 MTTase N-terminal domain.UniRule annotation
Contains 1 TRAM domain.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000224766.
KOiK14441.
OMAiCAIPSFK.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.80.30.20. 1 hit.
HAMAPiMF_01865. MTTase_RimO.
InterProiIPR006638. Elp3/MiaB/NifB.
IPR023970. MeThioTfrase/rSAM.
IPR005839. Methylthiotransferase.
IPR020612. Methylthiotransferase_CS.
IPR013848. Methylthiotransferase_N.
IPR012340. NA-bd_OB-fold.
IPR005840. Ribosomal_S12_MeSTrfase_RimO.
IPR007197. rSAM.
IPR023404. rSAM_horseshoe.
IPR002792. TRAM_dom.
[Graphical view]
PANTHERiPTHR11918. PTHR11918. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
PF01938. TRAM. 1 hit.
PF00919. UPF0004. 1 hit.
[Graphical view]
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00089. TIGR00089. 1 hit.
TIGR01125. TIGR01125. 1 hit.
PROSITEiPS51449. MTTASE_N. 1 hit.
PS01278. MTTASE_RADICAL. 1 hit.
PS50926. TRAM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

D3PQU4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAGKVGFVSL GCPKALVDSE QILSRLRAQG YETSPTYQEA DVVVVNTCGF
60 70 80 90 100
ITPAVEESLT AIGEALSENG KVIVTGCLGA RPEVIQQAHP QVLEVTGPGE
110 120 130 140 150
VDRVLAAVQR VVPLEQNPFT ALVPPQVKLT PRHYAYLKIA EGCNHKCSFC
160 170 180 190 200
IIPKLRGLQQ SRDAAEILFE ATRLVGTGTK ELLVIAQDTS AYGVDIRHRT
210 220 230 240 250
SDYAGKQVRA HLVDLVNELA GLGAWLRLHY VYPYPHVRDL IPLMAEGKLL
260 270 280 290 300
PYLDVPLQHA SPRVLRAMRR PGGAESHLKT IQEWRAIAPD LAIRSSFIVG
310 320 330 340 350
FPGETEEDFE LLLDFIAEAR LDRVGCFTYS EVEGADANSL PGAVPQEVKE
360 370 380 390 400
ERRARLMALQ QQISLEKNQA RLGQTLEVIV DDYGELPGLV VGRSRYDAPG
410 420 430 440 450
IDGLVYAETD GTVKIGDIIQ VRITQAEAYD LHGEMVGRVA WKPAVPVIKN

VATETIQV
Length:458
Mass (Da):50,106
Last modified:April 20, 2010 - v1
Checksum:iB5CBD124ED5BC1F9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP005385 Genomic DNA. Translation: AGK04294.1.
RefSeqiYP_003506847.1. NC_013946.1.
YP_007879791.1. NC_021081.1.

Genome annotation databases

EnsemblBacteriaiADD27827; ADD27827; Mrub_1063.
AGK04294; AGK04294; K649_04960.
KEGGimrb:Mrub_1063.
mre:K649_04960.
PATRICi35358266. VBIMeiRub128672_1069.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP005385 Genomic DNA. Translation: AGK04294.1.
RefSeqiYP_003506847.1. NC_013946.1.
YP_007879791.1. NC_021081.1.

3D structure databases

ProteinModelPortaliD3PQU4.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADD27827; ADD27827; Mrub_1063.
AGK04294; AGK04294; K649_04960.
KEGGimrb:Mrub_1063.
mre:K649_04960.
PATRICi35358266. VBIMeiRub128672_1069.

Phylogenomic databases

HOGENOMiHOG000224766.
KOiK14441.
OMAiCAIPSFK.

Enzyme and pathway databases

BioCyciMRUB504728:GI6U-1086-MONOMER.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.80.30.20. 1 hit.
HAMAPiMF_01865. MTTase_RimO.
InterProiIPR006638. Elp3/MiaB/NifB.
IPR023970. MeThioTfrase/rSAM.
IPR005839. Methylthiotransferase.
IPR020612. Methylthiotransferase_CS.
IPR013848. Methylthiotransferase_N.
IPR012340. NA-bd_OB-fold.
IPR005840. Ribosomal_S12_MeSTrfase_RimO.
IPR007197. rSAM.
IPR023404. rSAM_horseshoe.
IPR002792. TRAM_dom.
[Graphical view]
PANTHERiPTHR11918. PTHR11918. 1 hit.
PfamiPF04055. Radical_SAM. 1 hit.
PF01938. TRAM. 1 hit.
PF00919. UPF0004. 1 hit.
[Graphical view]
SMARTiSM00729. Elp3. 1 hit.
[Graphical view]
TIGRFAMsiTIGR00089. TIGR00089. 1 hit.
TIGR01125. TIGR01125. 1 hit.
PROSITEiPS51449. MTTASE_N. 1 hit.
PS01278. MTTASE_RADICAL. 1 hit.
PS50926. TRAM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Chin J., Alexander D.H., Marks P., Korlach J., Clum A., Copeland A.
    Submitted (APR-2013) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: DSM 1279Imported.

Entry informationi

Entry nameiD3PQU4_MEIRD
AccessioniPrimary (citable) accession number: D3PQU4
Entry historyi
Integrated into UniProtKB/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: April 29, 2015
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.