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Ligand · HT

HT · 2'-(4-hydroxyphenyl)-5-(4-methyl-1-piperazinyl)-2,5'-bi-benzimidazole

HT, 2'-(4-hydroxyphenyl)-5-(4-methyl-1-piperazinyl)-2,5'-bi-benzimidazole (C25 H24 N6 O, 424.5 g/mol), in the MolNFT structures on GenesisL1: bound in 38 records (19 PDB entries). Every binding site with its residues within 4.5 Å, the…

Component
HT
Formula
C25 H24 N6 O
Class
ligand
Structures
38
PDB entries
19

Binding sites

HT in 38 structures; the first of them:

  • 127D · DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') complexed with hoechst 33258 · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 128D · Molecular structure of D(CGC[E6G]AATTCGCG) complexed with hoechst 33258 · HT A25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 1D43 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex: 0 degrees C, piperazine up · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D44 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex: 0 degrees C, piperazine down · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D45 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex:-25 degrees C, piperazine down · HT A25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D46 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex:-100 degrees C, piperazine… · HT B25 · binds DG4, DA5, DA6, DT7, DT8, DC9, DA18, DT19 and 3 more
  • 1DNH · The molecular structure of the complex of hoechst 33258 and the DNA dodecamer… · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 1QSX · Solution NMR structure of the 2:1 hoechst 33258-D(CTTTTGCAAAAG)2 complex · HT B25 · binds DT2, DT3, DT4, DT5, DG6, DA20, DA21, DA22 and 2 more
  • 264D · Three-dimensional crystal structure of the a-tract DNA dodecamer D(CGCAAATTTGCG)… · HT B25 · binds DA6, DT7, DT8, DT9, DG10, DC11, DA16, DA17 and 4 more
  • 269D · Structural studies on nucleic acids · HT B25 · binds DA5, DA6, DT7, DT8, 5CM9, DG10, DA17, DA18 and 4 more
  • 296D · Sequence-dependent effects in drug-DNA interaction: the crystal structure of hoechst… · HT B25 · binds DA6, DT7, DT8, DT9, DG10, DC11, DA17, DA18 and 3 more
  • 3AJK · Crystal structure of d(CGCGGATf5UCGCG): 5-Formyluridine:Guanosine Base-pair in B-DNA with… · HT A25 · binds DG5, DA6, DT7, UFR8, DC9, DG10, DC11, DG16 and 5 more
  • 3GJJ · crystal structure of a DNA duplex containing 7,8-dihydropyridol[2,3-d]pyrimidin-2-one · HT B25 · binds DA5, DA6, DT7, B7C8, DC9, DA17, DA18, DT19 and 3 more
  • 3N4O · Insights into the stabilizing contributions of a bicyclic cytosine analogue: crystal… · HT E25 · binds DA5, DA6, DT7, B7C8, DC9, DA17, DA18, DT19 and 3 more
  • 4IJ0 · Structures of DNA duplexes containing O6-carboxymethylguanine, a lesion associated with… · HT B101 · binds DA5, DA6, DT7, DT8, DC9, DA18, DT19, DT20 and 3 more
  • 4ITD · Structures of DNA duplexes containing O6-carboxymethylguanine, a lesion associated with… · HT A102 · binds DG4, C6G5, DA6, DT7, DT8, DC9, DA18, DT19 and 4 more
  • 4O5W · O6-carboxymethylguanine in DNA forms a sequence context dependent wobble base pair… · HT A101 · binds C6G4, DA5, DA6, DT7, DT8, DT9, DA17, DA18 and 5 more
  • 4O5X · O6-carboxymethylguanine in DNA forms a sequence context dependent wobble base pair… · HT A101 · binds C6G4, DA5, DA6, DT7, DT8, DT9, DG10, DA17 and 5 more
  • 8BNA · Binding of hoechst 33258 to the minor groove of B-DNA · HT A25 · binds DA6, DT7, DT8, DC9, DG10, DC11, DG16, DA17 and 4 more
  • 127D · DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') complexed with hoechst 33258 · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 128D · Molecular structure of D(CGC[E6G]AATTCGCG) complexed with hoechst 33258 · HT A25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 1D43 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex: 0 degrees C, piperazine up · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D44 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex: 0 degrees C, piperazine down · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D45 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex:-25 degrees C, piperazine down · HT A25 · binds DA5, DA6, DT7, DT8, DC9, DA17, DA18, DT19 and 3 more
  • 1D46 · DNA dodecamer C-G-C-G-a-a-T-T-C-G-C-G/HOECHST 33258 complex:-100 degrees C, piperazine… · HT B25 · binds DG4, DA5, DA6, DT7, DT8, DC9, DA18, DT19 and 3 more
  • 1DNH · The molecular structure of the complex of hoechst 33258 and the DNA dodecamer… · HT B25 · binds DA5, DA6, DT7, DT8, DC9, DG10, DA17, DA18 and 3 more
  • 1QSX · Solution NMR structure of the 2:1 hoechst 33258-D(CTTTTGCAAAAG)2 complex · HT B25 · binds DT2, DT3, DT4, DT5, DG6, DA20, DA21, DA22 and 2 more
  • 264D · Three-dimensional crystal structure of the a-tract DNA dodecamer D(CGCAAATTTGCG)… · HT B25 · binds DA6, DT7, DT8, DT9, DG10, DC11, DA16, DA17 and 4 more
  • 269D · Structural studies on nucleic acids · HT B25 · binds DA5, DA6, DT7, DT8, 5CM9, DG10, DA17, DA18 and 4 more
  • 296D · Sequence-dependent effects in drug-DNA interaction: the crystal structure of hoechst… · HT B25 · binds DA6, DT7, DT8, DT9, DG10, DC11, DA17, DA18 and 3 more
  • 3AJK · Crystal structure of D(CGCGGATF5UCGCG): 5-FORMYLURIDINE:GUANOSINE base-pair in B-DNA with… · HT A25 · binds DG5, DA6, DT7, UFR8, DC9, DG10, DC11, DG16 and 5 more
  • 3GJJ · Crystal structure of a DNA duplex containing 7,8- DIHYDROPYRIDOL[2,3-D]PYRIMIDIN-2-one · HT B25 · binds DA5, DA6, DT7, B7C8, DC9, DA17, DA18, DT19 and 3 more
  • 3N4O · Insights into the stabilizing contributions of a bicyclic cytosine analogue: crystal… · HT E25 · binds DA5, DA6, DT7, B7C8, DC9, DA17, DA18, DT19 and 3 more
  • 4IJ0 · Structures of DNA duplexes containing O6-carboxymethylguanine, a lesion associated with… · HT B101 · binds DA5, DA6, DT7, DT8, DC9, DA18, DT19, DT20 and 3 more
  • 4ITD · Structures of DNA duplexes containing O6-carboxymethylguanine, a lesion associated with… · HT A102 · binds DG4, C6G5, DA6, DT7, DT8, DC9, DA18, DT19 and 4 more
  • 4O5W · O6-carboxymethylguanine in DNA forms a sequence context dependent wobble base pair… · HT A101 · binds C6G4, DA5, DA6, DT7, DT8, DT9, DA17, DA18 and 5 more
  • 4O5X · O6-carboxymethylguanine in DNA forms a sequence context dependent wobble base pair… · HT A101 · binds C6G4, DA5, DA6, DT7, DT8, DT9, DG10, DA17 and 5 more
  • 8BNA · Binding of hoechst 33258 to the minor groove of B-DNA · HT A25 · binds DA6, DT7, DT8, DC9, DG10, DC11, DG16, DA17 and 4 more

Residues it binds most

DT 40, DA 40, DC 32, DG 40, B7C 4, C6G 6, 5CM 2, UFR 2 (residue and the binding sites it lines).

Found with

  • MG · Magnesium ion
  • SR · Strontium ion
  • NA · Sodium ion

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