MERNA

A Database of Metal Ion Binding Sites in RNA

40 PDB files have been found to contain the metal ion Calcium as specified per your search criterion:

• 1DQF (2 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of helix ii of the x. laevis somatic 5s rrna with a cytosine bulge in two conformations
• 1F8V (1 Ca ion) (Within 6 Angstroms of any RNA atom) - The structure of pariacoto virus reveals a dodecahedral cage of duplex rna
• 1G2J (2 Ca ions) (Within 6 Angstroms of any RNA atom) - Rna octamer r(cccp*gggg) containing phenyl ribonucleotide
• 1G4Q (3 Ca ions) (Within 6 Angstroms of any RNA atom) - Rna/dna hybrid decamer of caaagaaaag/cttttctttg
• 1J8G (3 Ca ions) (Within 6 Angstroms of any RNA atom) - X-ray analysis of a rna tetraplex r(uggggu)4 at ultra-high resolution
• 1J9H (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna duplex with uridine bulges
• 1LNT (3 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of the highly conserved rna internal loop of srp
• 1M5K (33 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of a hairpin ribozyme in the catalytically-active conformation
• 1M5O (37 Ca ions) (Within 6 Angstroms of any RNA atom) - Transition state stabilization by a catalytic rna
• 1M5P (26 Ca ions) (Within 6 Angstroms of any RNA atom) - Transition state stabilization by a catalytic rna
• 1M5V (34 Ca ions) (Within 6 Angstroms of any RNA atom) - Transition state stabilization by a catalytic rna
• 1M8V (7 Ca ions) (Within 6 Angstroms of any RNA atom) - Structure of pyrococcus abyssii sm protein in complex with a uridine heptamer
• 1PJG (5 Ca ions) (Within 6 Angstroms of any RNA atom) - Rna/dna hybrid decamer of caaagaaaag/cttttctttg
• 1VQ4 (1 Ca ion) (Within 6 Angstroms of any RNA atom) - The structure of the transition state analogue "daa" bound to the large ribosomal subunit of haloarcula marismortui
• 1VQ5 (1 Ca ion) (Within 6 Angstroms of any RNA atom) - The structure of the transition state analogue "raa" bound to the large ribosomal subunit of haloarcula marismortui
• 1VQ7 (1 Ca ion) (Within 6 Angstroms of any RNA atom) - The structure of the transition state analogue "dca" bound to the large ribosomal subunit of haloarcula marismortui
• 1YY0 (2 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna duplex containing a 2`-amine substitution and a 2`-amide product produced by in-crystal acylation at a c-a mismatch
• 1YZD (1 Ca ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna duplex containing a site specific 2`-amine substitution at a c-g watson-crick base pair
• 1Z79 (1 Ca ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna duplex containing a site specific 2`-amine substitution at a c-a mismatch (at ph 5)
• 2BBV (5 Ca ions) (Within 6 Angstroms of any RNA atom) - The refined three-dimensional structure of an insect virus at 2.8 angstroms resolution
• 2CV2 (2 Ca ions) (Within 6 Angstroms of any RNA atom) - Glutamyl-trna synthetase from thermus thermophilus in complex with trna(glu) and an enzyme inhibitor, glu-ams
• 2DXI (3 Ca ions) (Within 6 Angstroms of any RNA atom) - A crystal structure of glutamyl-trna synthetase from thermus thermophilus complexed with trna(glu), atp, and l-glutamol
• 2G32 (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2G8K (4 Ca ions) (Within 6 Angstroms of any RNA atom) - B. halodurans rnase h catalytic domain d192n mutant in complex with ca2+ and rna/dna hybrid (non-p nick at the active site)
• 2G8W (2 Ca ions) (Within 6 Angstroms of any RNA atom) - B. halodurans rnase h catalytic domain e188a mutant in complex with ca2+ and rna/dna hybrid
• 2GPM (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2GQ4 (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2GQ5 (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2GQ6 (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2GQ7 (6 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an rna racemate
• 2HOK (7 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an e. coli thi-box riboswitch bound to thiamine pyrophosphate, calcium ions
• 2HOL (4 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an e. coli thi-box riboswitch bound to thiamine pyrophosphate, barium ions
• 2HOM (2 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an e. coli thi-box riboswitch bound to thiamine monophosphate
• 2HOO (7 Ca ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an e. coli thi-box riboswitch bound to benfotiamine
• 2HOP (1 Ca ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of an e. coli thi-box riboswitch bound to pyrithiamine
• 2HOX (4 Ca ions) (Within 6 Angstroms of any RNA atom) - Alliinase from allium sativum (garlic)
• 2HOZ (1 Ca ion) (Within 6 Angstroms of any RNA atom) - Inter-subunit signaling in gsam
• 2TMV (1 Ca ion) (Within 6 Angstroms of any RNA atom) - Visualization of protein-nucleic acid interactions in a virus. refined structure of intact tobacco mosaic virus at 2.9 angstroms resolution by x-ray fiber diffraction
• 333D (1 Ca ion) (Within 6 Angstroms of any RNA atom) - The crystal structure of an rna oligomer incorporating tandem adenosine-inosine mismatches
• 397D (4 Ca ions) (Within 6 Angstroms of any RNA atom) - A 1.3 a resolution crystal structure of the hiv-1 trans-activation response region rna stem reveals a metal ion-dependent bulge conformation

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