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(-) Description

Title :  CRYSTAL STRUCTURE OF A MUTANT OF THE SARCIN/RICIN DOMAIN FROM RAT 28S RRNA
 
Authors :  C. C. Correll, J. Beneken, M. J. Plantinga, M. Lubbers, Y. L. Chan
Date :  22 Aug 03  (Deposition) - 25 Nov 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Sarcin/Ricin Domain, Ribonucleic Acid, Rna Recognition, Ribosomes, Elongation Factors, Mutant, Stem-Loop (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. C. Correll, J. Beneken, M. J. Plantinga, M. Lubbers, Y. L. Chan
The Common And Distinctive Features Of The Bulged-G Motif Based On A 1. 04 A Resolution Rna Structure
Nucleic Acids Res. V. 31 6806 2003
PubMed-ID: 14627814  |  Reference-DOI: 10.1093/NAR/GKG908
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SARCIN/RICIN 28S RRNA
    Chains: A, B, C
    Engineered: YES
    Fragment: SARCIN/RICIN DOMAIN
    Mutation: YES
    Other Details: THE 28S RIBOSOMAL RNA WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THE 28S RIBOSOMAL RNA IS NATURALLY FOUND IN RATTUS RATTUS (RAT).
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1NA1Ligand/IonSODIUM ION
2SO48Ligand/IonSULFATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1NA-1Ligand/IonSODIUM ION
2SO44Ligand/IonSULFATE ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1NA-1Ligand/IonSODIUM ION
2SO41Ligand/IonSULFATE ION
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1NA-1Ligand/IonSODIUM ION
2SO43Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREU B:4 , G B:5 , G C:13 , G C:14 , A C:17 , C C:18BINDING SITE FOR RESIDUE NA C 100
2AC2SOFTWAREG A:16 , A A:17 , HOH A:125 , HOH A:134 , G C:2 , G C:3BINDING SITE FOR RESIDUE SO4 A 101
3AC3SOFTWAREG A:2 , C A:27 , C A:28 , HOH A:126 , HOH A:129BINDING SITE FOR RESIDUE SO4 A 102
4AC4SOFTWAREG A:24 , C A:25 , HOH A:115 , HOH A:130BINDING SITE FOR RESIDUE SO4 A 103
5AC5SOFTWAREG A:16 , A C:15 , G C:16BINDING SITE FOR RESIDUE SO4 C 104
6AC6SOFTWAREG C:2 , C C:27 , C C:28BINDING SITE FOR RESIDUE SO4 C 105
7AC7SOFTWAREG C:24 , C C:25 , A C:26 , HOH C:142BINDING SITE FOR RESIDUE SO4 C 106
8AC8SOFTWAREG B:2 , C B:27 , C B:28 , HOH B:121 , HOH B:132BINDING SITE FOR RESIDUE SO4 B 107
9AC9SOFTWAREG A:10 , HOH A:121BINDING SITE FOR RESIDUE SO4 A 108

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q93)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Q93)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q93)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Q93)

(-) Exons   (0, 0)

(no "Exon" information available for 1Q93)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:RNA  Length:27
                                                          
                  1q93 A  2 GGUGCUCAGUAGGAGACGAACCGCACC 28
                                    11        21       


Chain B from PDB  Type:RNA  Length:27
                                                          
                  1q93 B  2 GGUGCUCAGUAGGAGACGAACCGCACC 28
                                    11        21       


Chain C from PDB  Type:RNA  Length:27
                                                          
                  1q93 C  2 GGUGCUCAGUAGGAGACGAACCGCACC 28
                                    11        21
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1Q93)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Q93)

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1Q93)

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  1q93
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 Related Entries

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

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(-) Related Entries Specified in the PDB File

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1q96 CRYSTAL STRUCTURE OF A MUTANT OF THE SARCIN/RICIN DOMAIN FROM RAT 28S RRNA
1q9a CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E.COLI 23S RRNA AT 1.04 RESOLUTION
480d CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA
483d CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA