Reviewed, UniProtKB/Swiss-Prot P60488 (RL13_THET8)

Names and origin

Protein names

Recommended name:
    50S ribosomal protein L13

Gene names

Name:	rplM
Ordered Locus Names:	TTHA1465

Organism

Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) [Complete proteome] [HAMAP]

Taxonomic identifier

300852 [NCBI]

Taxonomic lineage

Bacteria › Deinococcus-Thermus › Deinococci › Thermales › Thermaceae › Thermus

Protein attributes

Sequence length	140 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	This protein is one of the early assembly proteins of the 50S ribosomal subunit, although it is not seen to bind rRNA by itself. It is important during the early stages of 50S assembly By similarity.
Subunit structure	Part of the 50S ribosomal subunit. HAMAP MF_01366
Sequence similarities	Belongs to the ribosomal protein L13P family.
Mass spectrometry	Molecular mass is 15896 Da from positions 1 - 140. Determined by MALDI. Ref.3

Ontologies

Keywords
Molecular function	Ribonucleoprotein Ribosomal protein
Technical term	3D-structure Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	translation Inferred from electronic annotation. Source: HAMAP
Cellular component	ribosome Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	structural constituent of ribosome Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 140

140

50S ribosomal protein L13 HAMAP MF_01366

PRO_0000133754

Experimental info

Sequence conflict

27

1

A → H AA sequence Ref.2

Secondary structure

1

.

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.

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140

Helix Strand Turn

Details...

Helix

26 – 34

9

Beta strand

39 – 41

3

Turn

44 – 46

3

Beta strand

67 – 71

5

Helix

87 – 92

6

Helix

97 – 103

7

Helix

116 – 118

3

Sequences

	Sequence		Length	Mass (Da)
	P60488-1 [UniParc]. Last modified March 29, 2005. Version 2. Checksum: 657212AE35E6F502	FASTA	140	15,895
	10 20 30 40 50 60 MKTYVPKQVE PRWVLIDAEG KTLGRLATKI ATLLRGKHRP DWTPNVAMGD FVVVVNADKI 70 80 90 100 110 120 RVTGKKLEQK IYTRYSGYPG GLKKIPLEKM LATHPERVLE HAVKGMLPKG PLGRRLFKRL 130 140 KVYAGPDHPH QAQRPEKLEV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete genome sequence of Thermus thermophilus HB8." Masui R., Kurokawa K., Nakagawa N., Tokunaga F., Koyama Y., Shibata T., Oshima T., Yokoyama S., Yasunaga T., Kuramitsu S. Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[2]	"Identification of the 50S ribosomal proteins from the eubacterium Thermus thermophilus." Katsani K.R., Tsiboli P., Anagnostopoulos K., Urlaub H., Choli-Papadopoulou T. Biol. Chem. 381:1079-1087(2000) [PubMed: 11154066] [Abstract] Cited for: PROTEIN SEQUENCE OF 1-39.
[3]	"Extending ribosomal protein identifications to unsequenced bacterial strains using matrix-assisted laser desorption/ionization mass spectrometry." Suh M.-J., Hamburg D.M., Gregory S.T., Dahlberg A.E., Limbach P.A. Proteomics 5:4818-4831(2005) [PubMed: 16287167] [Abstract] Cited for: MASS SPECTROMETRY.
[4]	"The path of messenger RNA through the ribosome." Yusupova G.Z., Yusupov M.M., Cate J.H.D., Noller H.F. Cell 106:233-241(2001) [PubMed: 11511350] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (5.0 ANGSTROMS) OF THE RIBOSOME.
[5]	"Crystal structure of the ribosome at 5.5 A resolution." Yusupov M.M., Yusupova G.Z., Baucom A., Lieberman K., Earnest T.N., Cate J.H.D., Noller H.F. Science 292:883-896(2001) [PubMed: 11283358] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (5.5 ANGSTROMS) OF THE RIBOSOME.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

AP008226 Genomic DNA. Translation: BAD71288.1.

RefSeq

YP_144731.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1GIY	X-ray	5.50	M	-	[»]
1YL3	X-ray	5.50	M	54-57	[»]
2HGJ	X-ray	5.00	M	1-140	[»]
2HGQ	X-ray	5.50	M	1-140	[»]
2HGU	X-ray	4.51	M	1-140	[»]
2J01	X-ray	2.80	N	1-140	[»]
2J03	X-ray	2.80	N	1-140	[»]
2V47	X-ray	3.80	N	1-140	[»]
2V49	X-ray	3.80	N	1-140	[»]
2WDI	X-ray	3.30	N	1-140	[»]
2WDJ	X-ray	3.30	N	1-140	[»]
2WDL	X-ray	3.50	N	1-140	[»]
2WDN	X-ray	3.50	N	1-140	[»]
2WH2	X-ray	3.45	N	1-140	[»]
2WH4	X-ray	3.45	N	1-140	[»]
3FIN	electron microscopy	6.40	N	1-139	[»]

ModBase

Search...

Protein-protein interaction databases

STRING

P60488.

Genome annotation databases

GeneID

3168485.

GenomeReviews

Gene locus TTHA1465 in contig AP008226_GR.

KEGG

ttj:TTHA1465.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

P60488.

OMA

PKNKLAR.

Enzyme and pathway databases

BioCyc

TTHE300852:TTHA1465-MON.

Family and domain databases

HAMAP

MF_01366.
[Tree]

InterPro

IPR005822. Ribosomal_L13.
IPR005823. Ribosomal_L13_bac-type.
[Graphical view]

Gene3D

G3DSA:3.90.1180.10. Ribosomal_L13. 1 hit.

PANTHER

PTHR11545:SF2. Ribosom_L13_bac. 1 hit.
PTHR11545. Ribosomal_L13. 1 hit.

Pfam

PF00572. Ribosomal_L13. 1 hit.
[Graphical view]

PIRSF

PIRSF002181. Ribosomal_L13. 1 hit.

ProDom

PD001791. Ribosomal_L13. 1 hit.
[Graphical view] [Entries sharing at least one domain]

TIGRFAMs

TIGR01066. rplM_bact. 1 hit.

PROSITE

PS00783. RIBOSOMAL_L13. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RL13_THET8

Accession

Primary (citable) accession number: P60488
Secondary accession number(s): Q5SIA9

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 2004
Last sequence update:	March 29, 2005
Last modified:	November 3, 2009
This is version 52 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)