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(-) Description

Title :  CRYSTAL STRUCTURE OF THE FMN RIBOSWITCH BOUND TO FMN, MN2+ SOAK.
 
Authors :  A. A. Serganov, L. Huang
Date :  30 Oct 08  (Deposition) - 27 Jan 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.20
Chains :  Asym./Biol. Unit :  X
Keywords :  Fmn, Riboswitch, Transcription, Manganese, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Serganov, L. Huang, D. J. Patel
Coenzyme Recognition And Gene Regulation By A Flavin Mononucleotide Riboswitch.
Nature V. 458 233 2009
PubMed-ID: 19169240  |  Reference-DOI: 10.1038/NATURE07642

(-) Compounds

Molecule 1 - FMN RIBOSWITCH
    Chains: X
    Engineered: YES
    Other Details: IN VITRO TRANSCRIBED RNA FROM THE FUSOBACTERIUM NUCLEATUM IMPX GENE.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (6, 20)

Asymmetric/Biological Unit (6, 20)
No.NameCountTypeFull Name
1CCC1Mod. NucleotideCYTIDINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE
3GTP1Mod. NucleotideGUANOSINE-5'-TRIPHOSPHATE
4K2Ligand/IonPOTASSIUM ION
5MG11Ligand/IonMAGNESIUM ION
6MN4Ligand/IonMANGANESE (II) ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREG X:10 , G X:11 , G X:32 , G X:33 , A X:48 , A X:49 , U X:61 , G X:62 , G X:84 , A X:85 , A X:99 , MN X:404BINDING SITE FOR RESIDUE FMN X 200
02AC2SOFTWAREG X:36 , U X:37BINDING SITE FOR RESIDUE K X 300
03AC3SOFTWAREU X:96 , G X:97BINDING SITE FOR RESIDUE K X 301
04AC4SOFTWAREC X:13 , A X:14 , G X:15BINDING SITE FOR RESIDUE MG X 306
05AC5SOFTWAREGTP X:1 , G X:2BINDING SITE FOR RESIDUE MG X 308
06AC6SOFTWAREG X:28BINDING SITE FOR RESIDUE MG X 310
07AC7SOFTWAREA X:22 , U X:23BINDING SITE FOR RESIDUE MG X 314
08AC8SOFTWAREC X:43 , U X:65 , U X:74BINDING SITE FOR RESIDUE MG X 315
09AC9SOFTWAREC X:43BINDING SITE FOR RESIDUE MG X 317
10BC1SOFTWAREG X:19BINDING SITE FOR RESIDUE MN X 401
11BC2SOFTWAREG X:93BINDING SITE FOR RESIDUE MN X 402
12BC3SOFTWAREU X:89 , A X:92BINDING SITE FOR RESIDUE MN X 403
13BC4SOFTWAREG X:33 , FMN X:200BINDING SITE FOR RESIDUE MN X 404

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3F2Y)

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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Chain X from PDB  Type:RNA  Length:109
                                                                                                                                             
                 3f2y X   1 gGAUCUUCGGGGCAGGGUGAAAUUCCCGACCGGUGGUAUAGUCCACGAAAGUAGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGAGAGAAGAUUc 112
                            |       10        20        30        40        50  ||    63        73        83        93       103        |
                            |                                                  53|                                                    112-CCC
                            1-GTP                                               57
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3F2Y)

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(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
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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

3f2q FMN BOUND, NATIVE DATA SET
3f2t FMN BOUND, IRIDIUM SOAK
3f2w FMN BOUND, BARIUM SOAK
3f2x FMN BOUND, CESIUM SOAK
3f30 FMN BOUND, COBALT SOAK
3f4e FMN BOUND, NATIVE DATA SET, SPLIT RNA
3f4g RIBOFLAVIN BOUND, NATIVE DATA SET, SPLIT RNA
3f4h ROSEOFLAVIN BOUND