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(-) Description

Title :  29-MER FRAGMENT OF HUMAN SRP RNA HELIX 6
 
Authors :  K. Wild, O. Weichenrieder, G. A. Leonard, S. Cusack
Date :  05 Oct 99  (Deposition) - 02 Dec 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C  (2x)
Keywords :  A-Rna Helix, Ggag/Gagg Bulge, Ac/Ca Tandem Mismatch, Gu Wobble Base Pairs, 2'3' -Cyclic Phosphate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Wild, O. Weichenrieder, G. A. Leonard, S. Cusack
The 2 A Structure Of Helix 6 Of The Human Signal Recognition Particle Rna
Structure Fold. Des. V. 7 1345 1999
PubMed-ID: 10574798  |  Reference-DOI: 10.1016/S0969-2126(00)80024-6
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 29-MER OF MODIFIED SRP RNA HELIX 6
    Chains: A
    Engineered: YES
    Fragment: NON-NATIVE DUPLEX
    Mutation: YES
    Other Details: THE RNA WAS PRODUCED BY T7 RNA POLYMERASE IN VITRO TRANSCRIPTION USING RIBOZYME TECHNOLOGY. THIS SEQUENCE OCCURS NATURALLY IN HUMANS
    Synthetic: YES
 
Molecule 2 - 29-MER OF MODIFIED SRP RNA HELIX 6
    Chains: B, C
    Engineered: YES
    Fragment: NON-NATIVE DUPLEX
    Mutation: YES
    Other Details: THE RNA WAS PRODUCED BY T7 RNA POLYMERASE IN VITRO TRANSCRIPTION USING RIBOZYME TECHNOLOGY. THIS SEQUENCE OCCURS NATURALLY IN HUMANS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): AB 
Biological Unit 2 (2x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric Unit (3, 9)
No.NameCountTypeFull Name
1A231Mod. NucleotideADENOSINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE
2GDP3Mod. NucleotideGUANOSINE-5'-DIPHOSPHATE
3MG5Ligand/IonMAGNESIUM ION
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1A231Mod. NucleotideADENOSINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE
2GDP2Mod. NucleotideGUANOSINE-5'-DIPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1A23-1Mod. NucleotideADENOSINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE
2GDP2Mod. NucleotideGUANOSINE-5'-DIPHOSPHATE
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH C:306 , HOH C:307 , HOH C:308 , HOH C:309BINDING SITE FOR RESIDUE MG C 301
2AC2SOFTWAREG B:19 , HOH B:310 , HOH B:311 , HOH B:312 , HOH B:313BINDING SITE FOR RESIDUE MG B 302
3AC3SOFTWAREHOH A:315 , HOH A:316 , HOH B:314BINDING SITE FOR RESIDUE MG B 303
4AC4SOFTWAREGDP A:1 , HOH A:317 , HOH A:318 , HOH A:319 , GDP B:1BINDING SITE FOR RESIDUE MG A 304
5AC5SOFTWAREHOH A:320 , HOH A:321 , HOH A:322 , GDP B:1 , G B:2BINDING SITE FOR RESIDUE MG A 305

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1D4R)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain A from PDB  Type:RNA  Length:29
                                                            
                  1d4r A  1 gGUGACCUCCCGGGAGCGGGGGACCACUa 29
                            |       10        20        |
                            |                          29-A23
                            1-GDP                        


Chain B from PDB  Type:DNA/RNA  Length:29
                                                            
                  1d4r B  1 gGUGACCUCCCGGGAGCGGGGGACCACUA 29
                            |       10        20         
                            |                            
                            1-GDP                        


Chain C from PDB  Type:DNA/RNA  Length:29
                                                            
                  1d4r C  1 gGUGACCUCCCGGGAGCGGGGGACCACUA 29
                            |       10        20         
                            1-GDP
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 1D4R)

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
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