Reviewed, UniProtKB/Swiss-Prot P14135 (RL6_HALMA)

Names and origin

Protein names

Recommended name:
    50S ribosomal protein L6P
Alternative name(s):
    Hmal6
    Hl10

Gene names

Name:	rpl6p
Ordered Locus Names:	rrnAC1596

Organism

Haloarcula marismortui (Halobacterium marismortui) [Complete proteome] [HAMAP]

Taxonomic identifier

2238 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Halobacteria › Halobacteriales › Halobacteriaceae › Haloarcula

Protein attributes

Sequence length	178 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	This protein binds to the 23S rRNA, and is important in its secondary structure. It is located near the subunit interface in the base of the L7/L12 stalk, and near the tRNA binding site of the peptidyltransferase center. HAMAP MF_01365
Subunit structure	Part of the 50S ribosomal subunit. Interacts weakly with protein L13. Ref.6 Ref.7 Ref.8 Ref.9 Ref.10 Ref.11 Ref.12 Ref.13
Sequence similarities	Belongs to the ribosomal protein L6P family.

Ontologies

Keywords
Ligand	RNA-binding rRNA-binding
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	rRNA binding Inferred from electronic annotation. Source: HAMAP 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

Initiator methionine

1

1

Removed Ref.3 Ref.4

Chain

2 – 178

177

50S ribosomal protein L6P HAMAP MF_01365

PRO_0000131083

Natural variations

Natural variant

3

1

R → S

Natural variant

24

1

E → S

Secondary structure

1

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178

Helix Strand Turn

Details...

Beta strand

3 – 7

5

Beta strand

13 – 17

5

Beta strand

20 – 25

6

Beta strand

28 – 33

6

Beta strand

40 – 44

5

Beta strand

47 – 51

5

Helix

57 – 77

21

Beta strand

81 – 88

8

Beta strand

90 – 92

3

Beta strand

95 – 99

5

Beta strand

102 – 107

6

Helix

108 – 110

3

Beta strand

115 – 118

4

Beta strand

124 – 128

5

Beta strand

131 – 137

7

Helix

139 – 151

13

Turn

160 – 162

3

Beta strand

166 – 171

6

Sequences

	Sequence		Length	Mass (Da)
	P14135-1 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 380872452165689C	FASTA	178	19,944
	10 20 30 40 50 60 MPRVELEIPE DVDAEQDHLD ITVEGDNGSV TRRLWYPDID VSVDGDTVVI ESDEDNAKTM 70 80 90 100 110 120 STIGTFQSHI ENMFHGVTEG WEYGMEVFYS HFPMQVNVEG DEVVIENFLG EKAPRRTTIH 130 140 150 160 170 GDTDVEIDGE ELTVSGPDIE AVGQTAADIE QLTRINDKDV RVFQDGVYIT RKPNRGDA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Organization and nucleotide sequence of ten ribosomal protein genes from the region equivalent to the spectinomycin operon in the archaebacterium Halobacterium marismortui." Scholzen T., Arndt E. Mol. Gen. Genet. 228:70-80(1991) [PubMed: 1832208] [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: 15520287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[3]	"The N-terminal sequence of ribosomal protein L10 from the archaebacterium Halobacterium marismortui and its relationship to eubacterial protein L6 and other ribosomal proteins." Dijk J., van den Broek R., Nasiulas G., Beck A., Reinhardt R., Wittmann-Liebold B. Biol. Chem. Hoppe-Seyler 368:921-925(1987) [PubMed: 3311072] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-55.
[4]	"Extended N-terminal sequencing of proteins of archaebacterial ribosomes blotted from two-dimensional gels onto glass fiber and poly(vinylidene difluoride) membrane." Walsh M.J., McDougall J., Wittmann-Liebold B. Biochemistry 27:6867-6876(1988) [PubMed: 3196689] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-31.
[5]	"Placement of protein and RNA structures into a 5 A-resolution map of the 50S ribosomal subunit." Ban N., Nissen P., Hansen J., Capel M., Moore P.B., Steitz T.A. Nature 400:841-847(1999) [PubMed: 10476961] [Abstract] Cited for: 3D-STRUCTURE MODELING.
[6]	"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: 10937989] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF THE 50S SUBUNIT. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[7]	"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: 10937990] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF THE 50S SUBUNIT. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[8]	"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: 11828326] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS) OF THE 50S SUBUNIT. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[9]	"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: 11483524] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF THE 50S SUBUNIT. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[10]	"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: 12150912] [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.
[11]	"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: 12185246] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF THE 50S SUBUNIT. Strain: ATCC 43049 / DSM 3752 / JCM 8966.
[12]	"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: 12860128] [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.
[13]	"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: 14561884] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.9 ANGSTROMS) OF THE 50S SUBUNIT WITH TWO DIFFERENT E SITE SUBSTRATES.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

X58395 Genomic DNA. Translation: CAA41287.1.
AY596297 Genomic DNA. Translation: AAV46514.1.

PIR

R5HS6L. S16538.

RefSeq

YP_136220.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1C04	X-ray	5.00	B	22-158	[»]
1FFK	X-ray	2.40	1	2-178	[»]
1JJ2	X-ray	2.40	E	2-178	[»]
1K73	X-ray	3.01	G	2-178	[»]
1K8A	X-ray	3.00	G	2-178	[»]
1K9M	X-ray	3.00	G	2-178	[»]
1KC8	X-ray	3.01	G	2-178	[»]
1KD1	X-ray	3.00	G	2-178	[»]
1KQS	X-ray	3.10	E	2-178	[»]
1M1K	X-ray	3.20	G	2-178	[»]
1M90	X-ray	2.80	G	2-178	[»]
1N8R	X-ray	3.00	G	2-178	[»]
1NJI	X-ray	3.00	G	2-178	[»]
1Q7Y	X-ray	3.20	G	2-178	[»]
1Q81	X-ray	2.95	G	2-178	[»]
1Q82	X-ray	2.98	G	2-178	[»]
1Q86	X-ray	3.00	G	2-178	[»]
1QVF	X-ray	3.10	E	2-178	[»]
1QVG	X-ray	2.90	E	2-178	[»]
1S72	X-ray	2.40	E	1-178	[»]
1VQ4	X-ray	2.70	E	1-178	[»]
1VQ5	X-ray	2.60	E	1-178	[»]
1VQ6	X-ray	2.70	E	1-178	[»]
1VQ7	X-ray	2.50	E	1-178	[»]
1VQ8	X-ray	2.20	E	1-178	[»]
1VQ9	X-ray	2.40	E	1-178	[»]
1VQK	X-ray	2.30	E	1-178	[»]
1VQL	X-ray	2.30	E	1-178	[»]
1VQM	X-ray	2.30	E	1-178	[»]
1VQN	X-ray	2.40	E	1-178	[»]
1VQO	X-ray	2.20	E	1-178	[»]
1VQP	X-ray	2.25	E	1-178	[»]
1W2B	X-ray	3.50	E	2-177	[»]
1YHQ	X-ray	2.40	E	1-178	[»]
1YI2	X-ray	2.65	E	1-178	[»]
1YIJ	X-ray	2.60	E	1-178	[»]
1YIT	X-ray	2.80	E	1-178	[»]
1YJ9	X-ray	2.90	E	1-178	[»]
1YJN	X-ray	3.00	E	1-178	[»]
1YJW	X-ray	2.90	E	1-178	[»]
2OTJ	X-ray	2.90	E	1-178	[»]
2OTL	X-ray	2.70	E	1-178	[»]
2QA4	X-ray	3.00	E	1-178	[»]
2QEX	X-ray	2.90	E	1-178	[»]
3CC2	X-ray	2.40	E	1-178	[»]
3CC4	X-ray	2.70	E	1-178	[»]
3CC7	X-ray	2.70	E	1-178	[»]
3CCE	X-ray	2.75	E	1-178	[»]
3CCJ	X-ray	2.70	E	1-178	[»]
3CCL	X-ray	2.90	E	1-178	[»]
3CCM	X-ray	2.55	E	1-178	[»]
3CCQ	X-ray	2.90	E	1-178	[»]
3CCR	X-ray	3.00	E	1-178	[»]
3CCS	X-ray	2.95	E	1-178	[»]
3CCU	X-ray	2.80	E	1-178	[»]
3CCV	X-ray	2.90	E	1-178	[»]
3CD6	X-ray	2.75	E	1-178	[»]
3CMA	X-ray	2.80	E	1-178	[»]
3CME	X-ray	2.95	E	1-178	[»]
3CPW	X-ray	2.70	E	1-178	[»]
3CXC	X-ray	3.00	E	2-178	[»]
3G4S	X-ray	3.20	E	2-173	[»]
3G6E	X-ray	2.70	E	2-173	[»]
3G71	X-ray	2.85	E	2-173	[»]

ModBase

Search...

Genome annotation databases

GeneID

3127517.

GenomeReviews

Gene locus rrnAC1596 in contig AY596297_GR.

KEGG

hma:rrnAC1596.

NMPDR

fig|272569.1.peg.1487.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

P14135.

OMA

QLTRIND.

Enzyme and pathway databases

BioCyc

HMAR272569:RRNAC1596-MON.

Family and domain databases

HAMAP

MF_01365.
[Tree]

InterPro

IPR000702. Ribosomal_L6.
IPR020040. Ribosomal_L6_a/b-dom.
IPR002359. Ribosomal_L6_CS2.
IPR019907. Ribosomal_L6P_arc.
[Graphical view]

Gene3D

G3DSA:3.90.930.12. Ribosomal_L6. 2 hits.

PANTHER

PTHR11655. Ribosomal_L6. 1 hit.

Pfam

PF00347. Ribosomal_L6. 2 hits.
[Graphical view]

PIRSF

PIRSF002162. Ribosomal_L6. 1 hit.

TIGRFAMs

TIGR03653. Arch_L6P. 1 hit.

PROSITE

PS00700. RIBOSOMAL_L6_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RL6_HALMA

Accession

Primary (citable) accession number: P14135
Secondary accession number(s): P12739, Q5V1T8

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1990
Last sequence update:	January 23, 2007
Last modified:	November 3, 2009
This is version 84 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

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