MERNA

A Database of Metal Ion Binding Sites in RNA

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

• 1A1T (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the hiv-1 nucleocapsid protein bound to the sl3 psi-rna recognition element, nmr, 25 structures
• 1D9F (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of the complex of dna polymerase i klenow fragment with dna tetramer carrying 2'-o-(3-aminopropyl)- rna modification 5'-d(tt)-ap(u)-d(t)-3'
• 1F6U (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Nmr structure of the hiv-1 nucleocapsid protein bound to stem-loop sl2 of the psi-rna packaging signal. implications for genome recognition
• 1FFY (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Insights into editing from an ile-trna synthetase structure with trna(ile) and mupirocin
• 1FJG (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in complex with the antibiotics streptomycin, spectinomycin, and paromomycin
• 1GAX (4 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of thermus thermophilus valyl-trna synthetase complexed with trna(val) and valyl-adenylate analogue
• 1H4Q (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Prolyl-trna synthetase from thermus thermophilus complexed with trnapro(cgg), atp and prolinol
• 1H4S (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Prolyl-trna synthetase from thermus thermophilus complexed with trnapro(cgg) and a prolyl-adenylate analogue
• 1HNW (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Ms2-rna hairpin (2thio-u -5-6) complex
• 1HNX (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Solution structure of lna3:rna hybrid
• 1HNZ (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in complex with hygromycin b
• 1HR0 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of initiation factor if1 bound to the 30s ribosomal subunit
• 1I6H (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex
• 1I94 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structures of the small ribosomal subunit with tetracycline, edeine and if3
• 1I95 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of the 30s ribosomal subunit from thermus thermophilus in complex with edeine
• 1I96 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of the 30s ribosomal subunit from thermus thermophilus in complex with the translation initiation factor if3 (c-terminal domain)
• 1I97 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of the 30s ribosomal subunit from thermus thermophilus in complex with tetracycline
• 1IBK (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in complex with the antibiotic paromomycin
• 1IBL (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in complex with a messenger rna fragment and cognate transfer rna anticodon stem-loop bound at the a site and with the antibiotic paromomycin
• 1IBM (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in complex with a messenger rna fragment and cognate transfer rna anticodon stem-loop bound at the a site
• 1J2B (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of archaeosine trna-guanine transglycosylase complexed with lambda-form trna(val)
• 1KOG (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of e. coli threonyl-trna synthetase interacting with the essential domain of its mrna operator
• 1N32 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit bound to codon and near-cognate transfer rna anticodon stem-loop mismatched at the first codon position at the a site with paromomycin
• 1N33 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit bound to codon and near-cognate transfer rna anticodon stem-loop mismatched at the second codon position at the a site with paromomycin
• 1N34 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in the presence of codon and crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the first codon position
• 1N36 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 30s ribosomal subunit in the presence of crystallographically disordered codon and near-cognate transfer rna anticodon stem-loop mismatched at the second codon position
• 1NLC (6 Zn ions) (Within 6 Angstroms of any RNA atom) - Hiv-1 dis(mal) duplex zn-soaked
• 1Q2R (4 Zn ions) (Within 6 Angstroms of any RNA atom) - Chemical trapping and crystal structure of a catalytic trna guanine transglycosylase covalent intermediate
• 1Q2S (4 Zn ions) (Within 6 Angstroms of any RNA atom) - Chemical trapping and crystal structure of a catalytic trna guanine transglycosylase covalent intermediate
• 1QF6 (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Structure of e. coli threonyl-trna synthetase complexed with its cognate trna
• 1QU2 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Insights into editing from an ile-trna synthetase structure with trna(ile) and mupirocin
• 1QU3 (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Insights into editing from an ile-trna synthetase structure with trna(ile) and mupirocin
• 1R9S (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii strand separated elongation complex, matched nucleotide
• 1R9T (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii strand separated elongation complex, matched nucleotide
• 1RGO (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structural basis for recognition of the mrna class ii au- rich element by the tandem zinc finger domain of tis11d
• 1S03 (17 Zn ions) (Within 6 Angstroms of any RNA atom) - The structure of a ribosomal protein s8/spc operon mrna complex
• 1U6P (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Nmr structure of the mlv encapsidation signal bound to the nucleocapsid protein
• 1UN6 (8 Zn ions) (Within 6 Angstroms of any RNA atom) - The crystal structure of a zinc finger - rna complex reveals two modes of molecular recognition
• 1XMO (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of mnm5u34t6a37-trnalysuuu complexed with aag-mrna in the decoding center
• 1XMQ (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of t6a37-asllysuuu aaa-mrna bound to the decoding center
• 1XNQ (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of an inosine-adenine wobble base pair complex in the context of the decoding center
• 1XNR (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of an inosine-cytosine wobble base pair in the context of the decoding center
• 1Y1W (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Complete rna polymerase ii elongation complex
• 1Y77 (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Complete rna polymerase ii elongation complex with substrate analogue gmpcpp
• 1YXP (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Hiv-1 dis rna subtype f- zn soaked
• 2AB4 (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Dissecting roles of a strictly conserved tyrosine in substrate recognition and catalysis by pseudouridine 55 synthase
• 2B3J (4 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of staphylococcus aureus trna adenosine deaminase, tada, in complex with rna
• 2B63 (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Complete rna polymerase ii-rna inhibitor complex
• 2CON (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Solution structure of rsgi ruh-035, a zn-ribbon module in mouse cdna
• 2D6F (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Crystal structure of glu-trna(gln) amidotransferase in the complex with trna(gln)
• 2E2H (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex at 5 mm mg2+ with gtp
• 2E2J (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex in 5 mm mg+2 with gmpcpp
• 2F4V (2 Zn ions) (Within 6 Angstroms of any RNA atom) - 30s ribosome + designer antibiotic
• 2FK6 (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of rnase z/trna(thr) complex
• 2HGH (3 Zn ions) (Within 6 Angstroms of any RNA atom) - Transcription factor iiia zinc fingers 4-6 bound to 5s rrna 55mer (nmr structure)
• 2HVY (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of an h/aca box rnp from pyrococcus furiosus
• 2I2T (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of ribosome with messenger rna and the anticodon stem-loop of p-site trna. this file contains the 50s subunit of one 70s ribosome. the entire crystal structure contains two 70s ribosomes and is described in remark 400.
• 2I2V (1 Zn ion) (Within 6 Angstroms of any RNA atom) - Crystal structure of ribosome with messenger rna and the anticodon stem-loop of p-site trna. this file contains the 50s subunit of one 70s ribosome. the entire crystal structure contains two 70s ribosomes and is described in remark 400.
• 2IHX (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Solution structure of the rous sarcoma virus nucleocapsid protein:upsi rna packaging signal complex
• 2J00 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 70s ribosome complexed with mrna, trna and paromomycin (part 1 of 4). this file contains the 30s subunit, mrna, a-, p- and e-site trnas and paromomycin for molecule i.
• 2J02 (2 Zn ions) (Within 6 Angstroms of any RNA atom) - Structure of the thermus thermophilus 70s ribosome complexed with mrna, trna and paromomycin (part 3 of 4). this file contains the 30s subunit, mrna, a-, p- and e-site trnas and paromomycin for molecule ii.
• 2NVQ (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex in 150 mm mg+2 with 2`dutp
• 2NVT (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex in 150 mm mg+2 with gmpcpp
• 2NVZ (8 Zn ions) (Within 6 Angstroms of any RNA atom) - Rna polymerase ii elongation complex with utp, updated 11/2006

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