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(-) Description

Title :  CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L27 FROM THERMUS THERMOPHILUS HB8
 
Authors :  H. Wang, C. Takemoto-Hori, K. Murayama, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  13 Jan 04  (Deposition) - 13 Jul 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Structural Genomics, Proteomics, Riken Structural Genomics/Proteomics Initiative, Rsgi, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wang, C. Takemoto-Hori, K. Murayama, H. Sakai, A. Tatsuguchi, T. Terada, M. Shirouzu, S. Kuramitsu, S. Yokoyama
Crystal Structure Of Ribosomal Protein L27 From Thermus Thermophilus Hb8
Protein Sci. V. 13 2806 2004
PubMed-ID: 15340170  |  Reference-DOI: 10.1110/PS.04864904
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TT0826
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-26
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1DTT1Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:69 , GLN A:70 , ASP A:71 , ARG B:32 , THR D:43 , LYS D:46 , ARG D:74BINDING SITE FOR RESIDUE DTT D 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V8Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1V8Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V8Q)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1RIBOSOMAL_L27PS00831 Ribosomal protein L27 signature.RL27_THET834-48
 
 
 		  4A:34-48
B:34-48
C:34-48
D:34-48

(-) Exons   (0, 0)

(no "Exon" information available for 1V8Q)

(-) Sequences/Alignments

Asymmetric/Biological 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:66
 aligned with RL27_THET8 | P60493 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:66
                                    29        39        49        59        69        79      
            RL27_THET8   20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
               SCOP domains d1v8qa_ A: Ribosomal protein L27                                   SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee......ee....eeee......ee...eee.....eee...eeeeeee.hhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------RIBOSOMAL_L27  ------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  1v8q A 20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
                                    29        39        49        59        69        79      


Chain B from PDB  Type:PROTEIN  Length:66
 aligned with RL27_THET8 | P60493 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:66
                                    29        39        49        59        69        79      
            RL27_THET8   20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
               SCOP domains d1v8qb_ B: Ribosomal protein L27                                   SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee......ee....eeee......ee...eee.....eee...eeeeeee.hhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------RIBOSOMAL_L27  ------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  1v8q B 20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
                                    29        39        49        59        69        79      


Chain C from PDB  Type:PROTEIN  Length:66
 aligned with RL27_THET8 | P60493 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:66
                                    29        39        49        59        69        79      
            RL27_THET8   20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
               SCOP domains d1v8qc_ C: Ribosomal protein L27                                   SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..ee......ee....eeee.....eee...eee.....eee...eeeeeee.hhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------RIBOSOMAL_L27  ------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  1v8q C 20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
                                    29        39        49        59        69        79      


Chain D from PDB  Type:PROTEIN  Length:66
 aligned with RL27_THET8 | P60493 from UniProtKB/Swiss-Prot  Length:85

    Alignment length:66
                                    29        39        49        59        69        79      
            RL27_THET8   20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
               SCOP domains d1v8qd_ D: Ribosomal protein L27                                   SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
           Pfam domains (1) Ribosomal_L27-1v8qD01 D:20-82                                  --- Pfam domains (1)
           Pfam domains (2) Ribosomal_L27-1v8qD02 D:20-82                                  --- Pfam domains (2)
           Pfam domains (3) Ribosomal_L27-1v8qD03 D:20-82                                  --- Pfam domains (3)
           Pfam domains (4) Ribosomal_L27-1v8qD04 D:20-82                                  --- Pfam domains (4)
         Sec.struct. author ..ee......ee....eeee.....eee...eee.....eee...eeeeeee.hhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------RIBOSOMAL_L27  ------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------ Transcript
                  1v8q D 20 RLGVKRYEGQVVRAGNILVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 85
                                    29        39        49        59        69        79
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1V8Q)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Ribosomal_L27] (7)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (RL27_THET8 | P60493)
molecular function
    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: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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  1v8q
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  RL27_THET8 | P60493
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        RL27_THET8 | P60493: 1vvj 1vy4 1vy5 1vy6 1vy7 4l47 4l71 4lel 4lfz 4lnt 4lsk 4lt8 4p6f 4p70 4tua 4tub 4tuc 4tud 4tue 4v4p 4v4x 4v4y 4v4z 4v51 4v5a 4v5c 4v5d 4v5e 4v5f 4v5g 4v5j 4v5k 4v5l 4v5m 4v5n 4v5p 4v5q 4v5r 4v5s 4v68 4v6a 4v6f 4v6g 4v7j 4v7k 4v7l 4v7m 4v7w 4v7x 4v7y 4v7z 4v87 4v8a 4v8b 4v8c 4v8d 4v8e 4v8f 4v8g 4v8h 4v8i 4v8j 4v8n 4v8o 4v8q 4v8u 4v8x 4v90 4v95 4v97 4v9a 4v9b 4v9h 4v9i 4v9r 4v9s 4w2e 4w2f 4w2g 4w2h 4w2i 4w4g 4wpo 4wq1 4wqf 4wqr 4wqu 4wqy 4wr6 4wra 4wro 4wsd 4wsm 4wt1 4wt8 4wu1 4wzd 4wzo 4y4o 4y4p 4ypb 4yzv 4z3s 4z8c 4zer 4zsn 5a9z 5aa0 5czp 5d8b 5dfe 5dox 5doy 5e7k 5e81 5el4 5el5 5el6 5el7 5f8k 5fdu 5fdv 5hau 5hcp 5hcq 5hcr 5hd1 5ib7 5ib8 5ibb 5imq 5imr 5j30 5j3c 5j4b 5j4c 5j8b

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