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P29198 (RL13_HALMA) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 103. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
50S ribosomal protein L13
Alternative name(s):
Hmal13
Gene names
Name:rpl13
Ordered Locus Names:rrnAC0065
OrganismHaloarcula marismortui (strain ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809) (Halobacterium marismortui) [Complete proteome] [HAMAP]
Taxonomic identifier272569 [NCBI]
Taxonomic lineageArchaeaEuryarchaeotaHalobacteriaHalobacterialesHalobacteriaceaeHaloarcula

Protein attributes

Sequence length145 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

This protein is one of the early assembly proteins of the 50S ribosomal subunit By similarity. Binds to 23S rRNA. HAMAP-Rule MF_01366

Subunit structure

Part of the 50S ribosomal subunit. Interacts weakly with proteins L3 and L6. Ref.3 Ref.4 Ref.5 Ref.6 Ref.7 Ref.8 Ref.9 Ref.10 Ref.11

Sequence similarities

Belongs to the ribosomal protein L13P family.

Ontologies

Keywords
   LigandRNA-binding
rRNA-binding
   Molecular functionRibonucleoprotein
Ribosomal protein
   Technical term3D-structure
Complete proteome
Gene Ontology (GO)
   Biological_processtranslation

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentlarge ribosomal subunit

Inferred from electronic annotation. Source: InterPro

   Molecular_functionrRNA binding

Inferred from electronic annotation. Source: UniProtKB-KW

structural constituent of ribosome

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 14514550S ribosomal protein L13 HAMAP-Rule MF_01366
PRO_0000133758

Secondary structure

............................. 145
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P29198 [UniParc].

Last modified December 1, 1992. Version 1.
Checksum: 069CE666662AE3BC

FASTA14516,228
        10         20         30         40         50         60 
MSVAEFDADV IVDARDCIMG RVASQVAEQA LDGETVAVVN AERAVITGRE EQIVEKYEKR 

        70         80         90        100        110        120 
VDIGNDNGYF YPKRPDGIFK RTIRGMLPHK KQRGREAFES VRVYLGNPYD EDGEVLDGTS 

       130        140 
LDRLSNIKFV TLGEISETLG ANKTW 

« Hide

References

« Hide 'large scale' references
[1]"Halobacterial S9 operon. Three ribosomal protein genes are cotranscribed with genes encoding a tRNA(Leu), the enolase, and a putative membrane protein in the archaebacterium Haloarcula (Halobacterium) marismortui."
Kroemer W.J., Arndt E.
J. Biol. Chem. 266:24573-24579(1991) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea."
Baliga N.S., Bonneau R., Facciotti M.T., Pan M., Glusman G., Deutsch E.W., Shannon P., Chiu Y., Weng R.S., Gan R.R., Hung P., Date S.V., Marcotte E., Hood L., Ng W.V.
Genome Res. 14:2221-2234(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[3]"The complete atomic structure of the large ribosomal subunit at 2.4 A resolution."
Ban N., Nissen P., Hansen J., Moore P.B., Steitz T.A.
Science 289:905-920(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF THE 50S SUBUNIT.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[4]"The structural basis of ribosome activity in peptide bond synthesis."
Nissen P., Hansen J., Ban N., Moore P.B., Steitz T.A.
Science 289:920-930(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF THE 50S SUBUNIT.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[5]"A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits."
Schmeing T.M., Seila A.C., Hansen J.L., Freeborn B., Soukup J.K., Scaringe S.A., Strobel S.A., Moore P.B., Steitz T.A.
Nat. Struct. Biol. 9:225-230(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[6]"The kink-turn: a new RNA secondary structure motif."
Klein D.J., Schmeing T.M., Moore P.B., Steitz T.A.
EMBO J. 20:4214-4221(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF THE 50S SUBUNIT.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[7]"The structures of four macrolide antibiotics bound to the large ribosomal subunit."
Hansen J.L., Ippolito J.A., Ban N., Nissen P., Moore P.B., Steitz T.A.
Mol. Cell 10:117-128(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH FOUR MACROLIDE ANTIBIOTICS.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[8]"Structural insights into peptide bond formation."
Hansen J.L., Schmeing T.M., Moore P.B., Steitz T.A.
Proc. Natl. Acad. Sci. U.S.A. 99:11670-11675(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF THE 50S SUBUNIT.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[9]"Structures of five antibiotics bound at the peptidyl transferase center of the large ribosomal subunit."
Hansen J.L., Moore P.B., Steitz T.A.
J. Mol. Biol. 330:1061-1075(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF THE 50S SUBUNIT IN COMPLEX WITH FIVE ANTIBIOTICS AT THE PEPTIDYL TRANSFERASE CENTER.
Strain: ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809.
[10]"Structures of deacylated tRNA mimics bound to the E site of the large ribosomal subunit."
Schmeing T.M., Moore P.B., Steitz T.A.
RNA 9:1345-1352(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.9 ANGSTROMS) OF THE 50S SUBUNIT WITH TWO DIFFERENT E SITE SUBSTRATES.
[11]"Revisiting the Haloarcula marismortui 50S ribosomal subunit model."
Gabdulkhakov A., Nikonov S., Garber M.
Acta Crystallogr. D 69:997-1004(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF THE 50S SUBUNIT.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M76567 Genomic DNA. Translation: AAA73097.1.
AY596297 Genomic DNA. Translation: AAV45145.1.
PIRB41715.
RefSeqYP_134851.1. NC_006396.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1FFKX-ray2.40G1-145[»]
1JJ2X-ray2.40I1-145[»]
1K73X-ray3.01K1-145[»]
1K8AX-ray3.00K1-145[»]
1K9MX-ray3.00K1-145[»]
1KC8X-ray3.01K1-145[»]
1KD1X-ray3.00K1-145[»]
1KQSX-ray3.10I1-145[»]
1M1KX-ray3.20K1-145[»]
1M90X-ray2.80K1-145[»]
1N8RX-ray3.00K1-145[»]
1NJIX-ray3.00K1-145[»]
1Q7YX-ray3.20K1-145[»]
1Q81X-ray2.95K1-145[»]
1Q82X-ray2.98K1-145[»]
1Q86X-ray3.00K1-145[»]
1QVFX-ray3.10I1-145[»]
1QVGX-ray2.90I1-145[»]
1S72X-ray2.40J1-145[»]
1VQ4X-ray2.70J1-145[»]
1VQ5X-ray2.60J1-145[»]
1VQ6X-ray2.70J1-145[»]
1VQ7X-ray2.50J1-145[»]
1VQ8X-ray2.20J1-145[»]
1VQ9X-ray2.40J1-145[»]
1VQKX-ray2.30J1-145[»]
1VQLX-ray2.30J1-145[»]
1VQMX-ray2.30J1-145[»]
1VQNX-ray2.40J1-145[»]
1VQOX-ray2.20J1-145[»]
1VQPX-ray2.25J1-145[»]
1W2BX-ray3.50I1-145[»]
1YHQX-ray2.40J1-145[»]
1YI2X-ray2.65J1-145[»]
1YIJX-ray2.60J1-145[»]
1YITX-ray2.80J1-145[»]
1YJ9X-ray2.90J1-145[»]
1YJNX-ray3.00J1-145[»]
1YJWX-ray2.90J1-145[»]
2B66X-ray5.90N1-145[»]
2B9NX-ray6.76N1-145[»]
2OTJX-ray2.90J1-145[»]
2OTLX-ray2.70J1-145[»]
2QA4X-ray3.00J1-145[»]
2QEXX-ray2.90J1-145[»]
3CC2X-ray2.40J1-145[»]
3CC4X-ray2.70J1-145[»]
3CC7X-ray2.70J1-145[»]
3CCEX-ray2.75J1-145[»]
3CCJX-ray2.70J1-145[»]
3CCLX-ray2.90J1-145[»]
3CCMX-ray2.55J1-145[»]
3CCQX-ray2.90J1-145[»]
3CCRX-ray3.00J1-145[»]
3CCSX-ray2.95J1-145[»]
3CCUX-ray2.80J1-145[»]
3CCVX-ray2.90J1-145[»]
3CD6X-ray2.75J1-145[»]
3CMAX-ray2.80J1-145[»]
3CMEX-ray2.95J1-145[»]
3CPWX-ray2.70I1-145[»]
3CXCX-ray3.00I1-145[»]
3G4SX-ray3.20J4-145[»]
3G6EX-ray2.70J4-145[»]
3G71X-ray2.85J4-145[»]
3I55X-ray3.11J1-145[»]
3I56X-ray2.90J1-145[»]
3OW2X-ray2.70I4-145[»]
4HUBX-ray2.40J1-145[»]
ProteinModelPortalP29198.
SMRP29198. Positions 4-145.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING272569.rrnAC0065.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAV45145; AAV45145; rrnAC0065.
GeneID3130528.
KEGGhma:rrnAC0065.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0102.
HOGENOMHOG000225287.
KOK02871.
OMARLSRPKY.

Enzyme and pathway databases

BioCycHMAR272569:GJDH-61-MONOMER.

Family and domain databases

Gene3D3.90.1180.10. 1 hit.
HAMAPMF_01366. Ribosomal_L13.
InterProIPR005822. Ribosomal_L13.
IPR023563. Ribosomal_L13_CS.
IPR023564. Ribosomal_L13_dom.
IPR005755. Ribosomal_L13_euk/arc.
[Graphical view]
PANTHERPTHR11545. PTHR11545. 1 hit.
PTHR11545:SF3. PTHR11545:SF3. 1 hit.
PfamPF00572. Ribosomal_L13. 1 hit.
[Graphical view]
PIRSFPIRSF002181. Ribosomal_L13. 1 hit.
SUPFAMSSF52161. SSF52161. 1 hit.
TIGRFAMsTIGR01077. L13_A_E. 1 hit.
PROSITEPS00783. RIBOSOMAL_L13. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP29198.

Entry information

Entry nameRL13_HALMA
AccessionPrimary (citable) accession number: P29198
Secondary accession number(s): Q5V5Q7
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: July 9, 2014
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Ribosomal proteins

Ribosomal proteins families and list of entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references