3CPQ - JenaLib

Title :   CRYSTAL STRUCTURE OF L30E A RIBOSOMAL PROTEIN FROM METHANOCALDOCOCCUS JANNASCHII DSM2661 (MJ1044)

Authors :   J. Jeyakanthan, R. Sarani, P. Mridula, K. Sekar, S. Kuramitsu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   01 Apr 08 (Deposition) - 07 Apr 09 (Release) - 07 Apr 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: A  (1x)
Biol. Unit 3: B  (1x)

Keywords :   Ribosomal, Rna-Protein, Elongation Factor, Ribonucleoprotein, Ribosomal Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Jeyakanthan, R. Sarani, P. Mridula, K. Sekar, S. Kuramitsu, S. Yokoyama
Crystal Structure Of L30E A Ribosomal Protein From Methanocaldococcus Jannaschii Dsm2661 (Mj1044)
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RIBOSOMAL_L30E_1	PS00709	Ribosomal protein L30e signature 1.	RL30E_METJA	19-43	2	A:19-43 B:19-43
2	RIBOSOMAL_L30E_2	PS00993	Ribosomal protein L30e signature 2.	RL30E_METJA	75-95	2	A:75-95 B:75-95

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RIBOSOMAL_L30E_1	PS00709	Ribosomal protein L30e signature 1.	RL30E_METJA	19-43	2	A:19-43 B:19-43
2	RIBOSOMAL_L30E_2	PS00993	Ribosomal protein L30e signature 2.	RL30E_METJA	75-95	2	A:75-95 B:75-95

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RIBOSOMAL_L30E_1	PS00709	Ribosomal protein L30e signature 1.	RL30E_METJA	19-43	1	A:19-43 -
2	RIBOSOMAL_L30E_2	PS00993	Ribosomal protein L30e signature 2.	RL30E_METJA	75-95	1	A:75-95 -

Biological Unit 3 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	RIBOSOMAL_L30E_1	PS00709	Ribosomal protein L30e signature 1.	RL30E_METJA	19-43	1	- B:19-43
2	RIBOSOMAL_L30E_2	PS00993	Ribosomal protein L30e signature 2.	RL30E_METJA	75-95	1	- B:75-95

Exons (0, 0)

Sequences/Alignments

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:99
 aligned with RL30E_METJA | P54061 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:99
                                    16        26        36        46        56        66        76        86        96         
          RL30E_METJA     7 MDVNKAIRTAVDTGKVILGSKRTIKFVKHGEGKLVVLAGNIPKDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSNIMELVEK 105
               SCOP domains --------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cpqA00 A:7-105  [code=3.30.1330.30, no name defined]                                               CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhheeeehhhhhhhhhhh....eeee....hhhhhhhhhhhhhhh...eee...hhhhhhhhh.......eeeeee....hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------RIBOSOMAL_L30E_1         -------------------------------RIBOSOMAL_L30E_2     ---------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------- Transcript
                 3cpq A   7 MDVNKAIRTAVDTGKVILGSKRTIKFVKHGEGKLVVLAGNIPKDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSNIMELVEK 105
                                    16        26        36        46        56        66        76        86        96

Chain B from PDB  Type:PROTEIN  Length:101
 aligned with RL30E_METJA | P54061 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:101
                                    16        26        36        46        56        66        76        86        96       106 
          RL30E_METJA     7 MDVNKAIRTAVDTGKVILGSKRTIKFVKHGEGKLVVLAGNIPKDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSNIMELVEKKE 107
               SCOP domains ----------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3cpqB00 B:7-107  [code=3.30.1330.30, no name defined]                                                 CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhheeeehhhhhhhhhhh....eeee....hhhhhhhhhhhhhhh...eee...hhhhhhhhh.......eeeeee....hhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------RIBOSOMAL_L30E_1         -------------------------------RIBOSOMAL_L30E_2     ------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 3cpq B   7 MDVNKAIRTAVDTGKVILGSKRTIKFVKHGEGKLVVLAGNIPKDLEEDVKYYAKLSNIPVYQHKITSLELGAVCGKPFPVAALLVLDEGLSNIMELVEKKE 107
                                    16        26        36        46        56        66        76        86        96       106

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Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (1, 2)

Pfam Domains (0, 0)

Gene Ontology (7, 7)

Asymmetric Unit(hide GO term definitions)

Chain A,B (RL30E_METJA | P54061)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003735	structural constituent of ribosome	The action of a molecule that contributes to the structural integrity of the ribosome.
biological process
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
	GO:0022625	cytosolic large ribosomal subunit	The large subunit of a ribosome located in the cytosol.
	GO:0005622	intracellular	The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.
	GO:0030529	intracellular ribonucleoprotein complex	An intracellular macromolecular complex containing both protein and RNA molecules.
	GO:0005840	ribosome	An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.

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