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(-) Description

Title :  CRYSTAL STRUCTURE OF PROTEIN LPL1258 FROM LEGIONELLA PNEUMOPHILA STR. PHILADELPHIA 1, PFAM DUF519
 
Authors :  J. B. Bonanno, J. Freeman, K. T. Bain, A. Slocombe, C. Reyes, S. Ozyurt, L S. Atwell, J. M. Sauder, S. K. Burley, S. C. Almo, New York Sgx Resear For Structural Genomics (Nysgxrc)
Date :  25 Jan 07  (Deposition) - 06 Feb 07  (Release) - 24 Oct 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Unknown Function, Psi-2, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. B. Bonanno, J. Freeman, K. T. Bain, A. Slocombe, C. Reyes, S. Ozyurt, L. Smyth, S. Atwell, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of The Hypothetical Lpl1258 Protein From Legionella Pneumophila
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PROTEIN INVOLVED IN CATABOLISM OF EXTERNAL DNA
    Atcc33152
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidMODIFIED PET26
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VectorPET
    Expression System Vector TypePLASMID
    GeneLPL1258, LPG1296, DSM 7513
    Organism ScientificLEGIONELLA PNEUMOPHILA SUBSP. PNEUMOPHILA
    Organism Taxid91891
    StrainLENS, PHILADELPHIA 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:110 , SER A:111 , ASN A:135 , LYS A:148 , HOH A:434BINDING SITE FOR RESIDUE SO4 A 301
2AC2SOFTWARETYR A:185 , SER A:216 , SER A:217 , LYS A:218 , LYS A:277BINDING SITE FOR RESIDUE SO4 A 302
3AC3SOFTWAREPRO A:76 , SER A:77 , THR A:143BINDING SITE FOR RESIDUE SO4 A 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OO3)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:153 -Pro A:154

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OO3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OO3)

(-) Exons   (0, 0)

(no "Exon" information available for 2OO3)

(-) 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:267
 aligned with Q5ZVZ2_LEGPH | Q5ZVZ2 from UniProtKB/TrEMBL  Length:287

    Alignment length:271
                                    23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283 
         Q5ZVZ2_LEGPH    14 HAGNFADVIKHITLTRLLAYLTHKDKPLFYLETHSGRGIYDLKDKQSLKTEEYKEGINPVWLDRENLPSLFLEYISVIKQINLNSTLSYYPGSPYFAINQLRSQDRLYLCELHPTEYNFLLKLPHFNKKVYVNHTDGVSKLNALLPPPEKRGLIFIDPSYERKEEYKEIPYAIKNAYSKFSTGLYCVWYPVVNKAWTEQFLRKMREISSKSVRIELHLNPLINEGMTGCGLWIINPPYTFPSEIKLVLETLTTYFNPGSSSYMIESGSKLC 284
               SCOP domains d2oo3a1 A:9-279 Uncharacterized protein LPG12    96                                                                                                                                                                                                                             SCOP domains
               CATH domains 2oo3A00 A:9-279 Vaccinia Virus protein VP39                                                                                                                                                                                                                                     CATH domains
               Pfam domains ------------------------DUF519-2oo3A01 A:33-2    74                                                                                                                                                                                                                       ----- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhh......eeee......eee....----.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhh....eeeee..hhhhhhhhh........eeee..hhhhhhhhhh......eeeee.......hhhhhhhhhhhhhhhhh...eeeeeeee.hhhhhhhhhhhhhhhh..eeeeeee..........eeeeeee....hhhhhhhhhhhhhhhhh.....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oo3 A   9 HAGNFADVIKHITLTRLLAYLTHKDKPLFYLETHSGRGIYDLKDK----TEEYKEGINPVWLDRENLPSLFLEYISVIKQINLNSTLSYYPGSPYFAINQLRSQDRLYLCELHPTEYNFLLKLPHFNKKVYVNHTDGVSKLNALLPPPEKRGLIFIDPSYERKEEYKEIPYAIKNAYSKFSTGLYCVWYPVVNKAWTEQFLRKMREISSKSVRIELHLNPLINEGMTGCGLWIINPPYTFPSEIKLVLETLTTYFNPGSSSYMIESGSKLC 279
                                    18        28        38        48    |   58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278 
                                                                       53   58                                                                                                                                                                                                                             

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q5ZVZ2_LEGPH | Q5ZVZ2)
molecular function
    GO:0036307    23S rRNA (adenine(2030)-N(6))-methyltransferase activity    Catalysis of the reaction: S-adenosyl-L-methionine + adenine(2030) in 23S rRNA = S-adenosyl-L-homocysteine + rRNA containing N(6)-methyladenine(2030) in 23S rRNA.
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0008649    rRNA methyltransferase activity    Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to a nucleoside residue in an rRNA molecule.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    GO:0070475    rRNA base methylation    The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule.
    GO:0006364    rRNA processing    Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.

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