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D8JQY1

- D8JQY1_HYPDA

UniProt

D8JQY1 - D8JQY1_HYPDA

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Protein

Ribosomal protein S12 methylthiotransferase RimO

Gene

rimO

Organism
Hyphomicrobium denitrificans (strain ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415)
Status
Unreviewed - Annotation score: 2 out of 5- Protein inferred from homologyi

Functioni

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

Cofactori

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 bindingi34 – 341Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi70 – 701Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi99 – 991Iron-sulfur (4Fe-4S)UniRule annotation
Metal bindingi166 – 1661Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi170 – 1701Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
Metal bindingi173 – 1731Iron-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

TransferaseUniRule annotationSAAS annotation

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciHDEN582899:GIWL-311-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribosomal protein S12 methylthiotransferase RimOUniRule annotation (EC:2.-.-.-UniRule annotation)
Short name:
S12 MTTaseUniRule annotation
Short name:
S12 methylthiotransferaseUniRule annotation
Alternative name(s):
Ribosome maturation factor RimOUniRule annotation
Gene namesi
Name:rimOUniRule annotation
Ordered Locus Names:Hden_0308Imported
OrganismiHyphomicrobium denitrificans (strain ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415)Imported
Taxonomic identifieri582899 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesHyphomicrobiaceaeHyphomicrobium
ProteomesiUP000002033: Chromosome

Subcellular locationi

Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Structurei

3D structure databases

ProteinModelPortaliD8JQY1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini25 – 135111MTTase N-terminalUniRule annotationAdd
BLAST
Domaini392 – 45867TRAMUniRule 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
Contains MTTase N-terminal domain.SAAS annotation
Contains TRAM domain.SAAS annotation

Phylogenomic databases

HOGENOMiHOG000224766.
KOiK14441.
OMAiPHDPFID.

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.
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.

D8JQY1-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MANPSVKVNA KARRAAHGSD TAAAPKVGFV SLGCPKALVD SERIITKLRA
60 70 80 90 100
EGYMIASDYE GADVVVVNTC GFLDSAKKES LDAIGEAMNA NGRVIVTGCF
110 120 130 140 150
GVEENRIRDA HPGVLAVTGP HQYEQVVEAV HDAVPPLHDP FVDLVPPEGL
160 170 180 190 200
RLTPRHYAYL KISEGCNNRC SFCIIPALRG DLASRPSNHV MGEAERLVNA
210 220 230 240 250
GVKELLVISQ DTSAYGLDIK YAESAWKGAP LKARFLDLSR ALGDLGVWVR
260 270 280 290 300
MHYVYPYPHV DDVIPLMADG KILPYLDIPF QHASPAVLKA MRRPAAQEKT
310 320 330 340 350
AERIRRWREV CPDLAIRSTF IVGFPGETEE DFAFLLDWLK EAGINRAGCF
360 370 380 390 400
KYEPVEGAKA NAIDGAVPDE VKEERWHRFM AVQKDVSSAQ LERKLGQTID
410 420 430 440 450
VLIDEVDEDG AIGRSKWDAP EIDGNVFLNG ERDVNAGDIV RAKVVEAGDY
460
DLWAERVSAN G
Length:461
Mass (Da):50,511
Last modified:October 5, 2010 - v1
Checksum:i6808AC1371C32673
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP002083 Genomic DNA. Translation: ADJ22133.1.
RefSeqiYP_003754454.1. NC_014313.1.

Genome annotation databases

EnsemblBacteriaiADJ22133; ADJ22133; Hden_0308.
GeneIDi9386185.
KEGGihdn:Hden_0308.
PATRICi42369115. VBIHypDen91677_0309.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP002083 Genomic DNA. Translation: ADJ22133.1 .
RefSeqi YP_003754454.1. NC_014313.1.

3D structure databases

ProteinModelPortali D8JQY1.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ADJ22133 ; ADJ22133 ; Hden_0308 .
GeneIDi 9386185.
KEGGi hdn:Hden_0308.
PATRICi 42369115. VBIHypDen91677_0309.

Phylogenomic databases

HOGENOMi HOG000224766.
KOi K14441.
OMAi PHDPFID.

Enzyme and pathway databases

BioCyci HDEN582899:GIWL-311-MONOMER.

Family and domain databases

Gene3Di 2.40.50.140. 1 hit.
3.80.30.20. 1 hit.
HAMAPi MF_01865. MTTase_RimO.
InterProi IPR006638. 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 ]
PANTHERi PTHR11918. PTHR11918. 1 hit.
Pfami PF04055. Radical_SAM. 1 hit.
PF00919. UPF0004. 1 hit.
[Graphical view ]
SMARTi SM00729. Elp3. 1 hit.
[Graphical view ]
TIGRFAMsi TIGR00089. TIGR00089. 1 hit.
TIGR01125. TIGR01125. 1 hit.
PROSITEi PS51449. MTTASE_N. 1 hit.
PS01278. MTTASE_RADICAL. 1 hit.
PS50926. TRAM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415Imported.

Entry informationi

Entry nameiD8JQY1_HYPDA
AccessioniPrimary (citable) accession number: D8JQY1
Entry historyi
Integrated into UniProtKB/TrEMBL: October 5, 2010
Last sequence update: October 5, 2010
Last modified: October 29, 2014
This is version 29 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported

External Data

Dasty 3