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(-) Description

Title :  CRYSTAL STRUCTURE OF MUTANT RIBOSOMAL PROTEIN G219V TTHL1
 
Authors :  A. G. Gabdulkhakov, N. A. Nevskaya, S. V. Nikonov
Date :  22 May 14  (Deposition) - 11 Feb 15  (Release) - 25 Feb 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Rossmann Fold, Ribosomal Protein, Rrna Binding, Ribosome (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Tishchenko, O. Kostareva, A. Gabdulkhakov, A. Mikhaylina, E. Nikonova, N. Nevskaya, A. Sarskikh, W. Piendl, M. Garber, S. Nikono
Protein-Rna Affinity Of Ribosomal Protein L1 Mutants Does Not Correlate With The Number Of Intermolecular Interactions.
Acta Crystallogr. , Sect. D V. 71 376 2015
PubMed-ID: 25664749  |  Reference-DOI: 10.1107/S1399004714026248

(-) Compounds

Molecule 1 - 50S RIBOSOMAL PROTEIN L1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A-PL/TTHL1 G219V
    Expression System Strain: BL11(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PET11A-PL
    Gene: RPLA, RPL1
    Mutation: YES
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 274

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CL3Ligand/IonCHLORIDE ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2CL-1Ligand/IonCHLORIDE ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CL-1Ligand/IonCHLORIDE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:34 , LYS A:36 , THR B:34 , LYS B:36BINDING SITE FOR RESIDUE CL A 301
2AC2SOFTWARELYS A:200 , THR A:207BINDING SITE FOR RESIDUE ACT A 302
3AC3SOFTWAREARG B:154 , THR B:207 , PHE B:208BINDING SITE FOR RESIDUE CL B 301
4AC4SOFTWARELYS B:70 , GLN B:71BINDING SITE FOR RESIDUE CL B 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QGB)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QGB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QGB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QGB)

(-) Exons   (0, 0)

(no "Exon" information available for 4QGB)

(-) 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:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eehhhhhhhhhhh.......eeeeeeee.....hhhhh.eeeee..........eeee...hhhhhhhh.......hhhhhhhhhh......eeeehhhhhhhhhhhhhhhhhhhh...hhhhh....hhhhhhhhhhhheeeee.....eeeeeeee...hhhhhhhhhhhhhhhhhh..........eeeeeee........ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qgb A  13 KVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMVPSVRINPHS 228
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      


Chain B from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eehhhhhhhhhhh.......eeeeeeee...........eeeee..........eeee...hhhhhh......eee.hhhhhhhhh......eeee...hhhhhhhhhhhhhhhhh............hhhhhhhhhh..eeeee.....eeeeeeee...hhhhhhhhhhhhhhhhhhh.........eeeeeee........ee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4qgb B  13 KVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMVPSVRINPHS 228
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4QGB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QGB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QGB)

(-) Gene Ontology  (9, 9)

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 Related Entries

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

UniProtKB/Swiss-Prot
        RL1_THETH | P27150: 1ad2 1eg0 1zho 2hw8 2oum 2ov7 2vpl 3tg8 3u4m 3u56 3umy 487d 4f9t 4qg3 4qvi 4reo 5ib7 5ib8 5ibb 5imq 5imr 5j8b

(-) Related Entries Specified in the PDB File

1u63 THE STRUCTURE OF A RIBOSOMAL PROTEIN L1-MRNA COMPLEX
3u42 MUTANT RIBOSOMAL PROTEIN L1 FROM THERMUS THERMOPHILUS WITH THREONINE 217 REPLACED BY VALINE
3u4m CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN TTHL1 IN COMPLEX WITH 80NT 23S RNA FROM THERMUS THERMOPHILUS
3u56 CRYSTAL STRUCTURE OF MUTANT RIBOSOMAL PROTEIN T217V TTHL1 IN COMPLEX WITH 80NT 23S RNA FROM THERMUS THERMOPHILUS
3umy CRYSTAL STRUCTURE OF MUTANT RIBOSOMAL PROTEIN T217A TTHL1 IN COMPLEX WITH 80NT 23S RNA FROM THERMUS THERMOPHILUS
4qg3 CRYSTAL STRUCTURE OF MUTANT RIBOSOMAL PROTEIN G219V TTHL1 IN COMPLEX WITH 80NT 23S RNA FROM THERMUS THERMOPHILUS