Reviewed, UniProtKB/Swiss-Prot P45748 (RIMN_ECOLI)

Names and origin

Protein names

Recommended name:
    Putative ribosome maturation factor rimN

Gene names

Name:	rimN
Synonyms:	yrdC
Ordered Locus Names:	b3282, JW3243

Organism

Escherichia coli (strain K12) [Complete proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	190 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Required for the maturation of 16S rRNA. May keep an rRNA structure needed for proper processing of 16S rRNA, especially at lower temperatures. Binds to double-stranded RNA but does not interact tightly with either of the ribosomal subunits, or the 70S particles. Ref.4
Subcellular location	Cytoplasm Potential.
Sequence similarities	Belongs to the SUA5 family. RimN subfamily. Contains 1 YrdC-like domain.

Ontologies

Keywords
Biological process	Ribosome biogenesis rRNA processing
Cellular component	Cytoplasm
Ligand	RNA-binding
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	rRNA processing Inferred from electronic annotation. Source: HAMAP
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	RNA binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 190

190

Putative ribosome maturation factor rimN HAMAP MF_01852

PRO_0000202018

Regions

Domain

7 – 190

184

YrdC-like

Secondary structure

1

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190

Helix Strand Turn

Details...

Helix

4 – 18

15

Beta strand

23 – 26

4

Beta strand

28 – 35

8

Helix

40 – 50

11

Helix

54 – 56

3

Beta strand

59 – 64

6

Helix

65 – 68

4

Helix

69 – 71

3

Helix

79 – 86

8

Beta strand

90 – 98

9

Helix

105 – 108

4

Beta strand

111 – 118

8

Helix

122 – 131

10

Beta strand

135 – 140

6

Helix

151 – 158

8

Beta strand

177 – 180

4

Turn

181 – 183

3

Beta strand

184 – 186

3

Sequences

	Sequence		Length	Mass (Da)
	P45748-1 [UniParc]. Last modified July 15, 1998. Version 2. Checksum: 4DCAAA8873FAB56F	FASTA	190	20,768
	10 20 30 40 50 60 MNNNLQRDAI AAAIDVLNEE RVIAYPTEAV FGVGCDPDSE TAVMRLLELK QRPVDKGLIL 70 80 90 100 110 120 IAANYEQLKP YIDDTMLTDV QRETIFSRWP GPVTFVFPAP ATTPRWLTGR FDSLAVRVTD 130 140 150 160 170 180 HPLVVALCQA YGKPLVSTSA NLSGLPPCRT VDEVRAQFGA AFPVVPGETG GRLNPSEIRD 190 ALTGELFRQG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[2]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[3]	"Enrichment of low abundance proteins of Escherichia coli by hydroxyapatite chromatography." Fountoulakis M., Takacs M.-F., Berndt P., Langen H., Takacs B. Electrophoresis 20:2181-2195(1999) [PubMed: 10493123] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY.
[4]	"The YrdC protein -- a putative ribosome maturation factor." Kaczanowska M., Ryden-Aulin M. Biochim. Biophys. Acta 1727:87-96(2005) [PubMed: 15716138] [Abstract] Cited for: FUNCTION. Strain: K12 / MG1655 / ATCC 47076.
[5]	"The structure of the yrdC gene product from Escherichia coli reveals a new fold and suggests a role in RNA binding." Teplova M., Tereshko V., Sanishvili R., Joachimiak A., Bushueva T., Anderson W.F., Egli M. Protein Sci. 9:2557-2566(2000) [PubMed: 11206077] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS), RNA-BINDING.

Cross-references

Sequence databases

EMBLGenBankDDBJ

U18997 Genomic DNA. Translation: AAA58079.1. Frameshift.
U00096 Genomic DNA. Translation: AAC76307.1.
AP009048 Genomic DNA. Translation: BAE78009.1.

PIR

E65120.

RefSeq

AP_004508.1.
NP_417741.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1HRU	X-ray	2.00	A/B	1-188	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP:12916N.

Genome annotation databases

GeneID

947783.

GenomeReviews

Gene locus JW3243 in contig AP009048_GR.
Gene locus b3282 in contig U00096_GR.

KEGG

ecj:JW3243.
eco:b3282.

Organism-specific databases

EchoBASE

EB2689.

EcoGene

EG12840. rimN.

CMR

Search...

Phylogenomic databases

HOGENOM

P45748.

OMA

P45748. FGLGCNP.

Enzyme and pathway databases

BioCyc

EcoCyc:G7698-MON.

Family and domain databases

HAMAP

MF_01852.
[Tree]

InterPro

IPR017945. DHBP_synth_RibB-like_a/b_dom.
IPR006070. Sua5/yciO/yrdC_N.
[Graphical view]

Gene3D

G3DSA:3.90.870.10. DHBP_synth_RibB-like_a/b_dom. 1 hit.

Pfam

PF01300. Sua5_yciO_yrdC. 1 hit.
[Graphical view]

PROSITE

PS51163. YRDC. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RIMN_ECOLI

Accession

Primary (citable) accession number: P45748
Secondary accession number(s): Q2M6U7

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	July 15, 1998
Last modified:	June 16, 2009
This is version 75 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)