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(-) Description

Title :  X-RAY STRUCTURE OF THE PROTEIN Q6F7I0 FROM ACINETOBACTER CALCOACETICUS AMMS 248. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ASR73.
 
Authors :  A. P. Kuzin, M. Su, S. Jayaraman, D. Wang, H. Janjua, K. Cunningham, L- C. Ma, R. Xiao, J. Liu, M. C. Baran, T. B. Acton, B. Rost, G. T. Montelione J. F. Hunt, L. Tong, Northeast Structural Genomics Consortium (Nesg)
Date :  28 Jun 07  (Deposition) - 17 Jul 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  X-Ray, Nesg, Asr73, Acinetobacter Calcoaceticus, Structural Genomics, Psi-2, Protein Structure Initiative, Northeast Structural Genomics Consortium, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. P. Kuzin, M. Su, S. Jayaraman, D. Wang, H. Janjua, K. Cunningham, L-C. Ma, R. Xiao, J. Liu, M. C. Baran, T. B. Acton, B. Rost, G. T. Montelione, J. F. Hunt, L. Tong
X-Ray Structure Of The Protein Q6F7I0 From Acinetobacter Calcoaceticus Amms 248.
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 16S RRNA-PROCESSING PROTEIN RIMM
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneRIMM, ACIAD3312
    MutationYES
    Organism ScientificACINETOBACTER CALCOACETICUS
    Organism Taxid471
    StrainADP1, AMMS 248

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION
2MSE4Mod. Amino AcidSELENOMETHIONINE
3UNL1Ligand/IonUNKNOWN LIGAND

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:146 , SER A:149 , ASP A:151BINDING SITE FOR RESIDUE K A 201
2AC2SOFTWARETYR A:105 , TRP A:106 , GLU A:131 , LEU A:132 , GLU A:134BINDING SITE FOR RESIDUE UNL A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QGG)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Glu A:34 -Pro A:35
2Leu A:43 -Pro A:44

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QGG)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2QGG)

(-) Exons   (0, 0)

(no "Exon" information available for 2QGG)

(-) 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:176
 aligned with RIMM_ACIAD | Q6F7I0 from UniProtKB/Swiss-Prot  Length:182

    Alignment length:176
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175      
           RIMM_ACIAD     6 NVPEDRIQIGQLRSAYGLNGWLWVYSNTEPMSNMFDYLPWFIETKAGWQTVDVKRWKPHGKGLVVSLKNVSDRNAAESLIGSTIWVAKSQLPKTDVDEYYWSDLKGLTVLGLDEEEQEVNLGQIHELFETGANDVMVVRATADSVDAEERMIPWHKDVVQRVDLEAGRIYVNWGVD 181
               SCOP domains d2qgga1 A:6-103 automated matches                                                                 d2qgga2 A:104-181 automated matches                                            SCOP domains
               CATH domains 2qggA01 A:6-98 RimM N-terminal domain-like                                                   2qggA02 A:99-181 PRC-barrel domain                                                  CATH domains
               Pfam domains -------RimM-2qggA02 A:13-95                                                               -----PRC-2qggA01 A:101-179                                                          -- Pfam domains
         Sec.struct. author .....eeeeeeeeeee....eeeeee...hhhhhhhh..eeeee..eeeee.eeeeeee..eeeeee....hhhhhhh....eeeee......hhhhhhhhhhhh..eeeee.....eeeeeeeeeeee....eeeeee..........eeee.....eeeee....eeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2qgg A   6 NVPEDRIQIGQLRSAYGLNGWLWVYSNTEPmSNmFDYLPWYIETKAGWQTVDVKRWKPHGKGLVVSLKGVSDRTGAESLVASNIWIAKSQLPKADVDEYYWSDLKGLTVLGLDDEEQEVNLGQIHELFETGANDVmVVRATPDSIDSEERmIPWHKDVVQRVDLEAGRIYVNWGVD 181
                                    15        25        35|  |    45        55        65        75        85        95       105       115       125       135     | 145       155|      165       175      
                                                         36-MSE                                                                                                  141-MSE        156-MSE                     
                                                            39-MSE                                                                                                                                          

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  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  (2, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RIMM_ACIAD | Q6F7I0)
molecular function
    GO:0043022    ribosome binding    Interacting selectively and non-covalently with any part of a ribosome.
biological process
    GO:0006364    rRNA processing    Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
    GO:0042274    ribosomal small subunit biogenesis    A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of a small ribosomal subunit; includes transport to the sites of protein synthesis.
    GO:0042254    ribosome biogenesis    A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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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