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Hydrogen bonding complementary, not size complementarity is key in the formation of the double helix

Analyse Hydrogen bonding complementary, not size complementarity is key in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
6B1R
Type
protein + DNA
Length
258 residues
Chains
3
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Reverse transcriptase; DNA (5'-D(*CP*TP*TP*AP*TP*(1WA)P*(1WA)P*(1WA))-3'); DNA…
EC
2.7.7.49
UniProt
P03355
Pockets
2 · best druggability 0.50

Structure

x-ray diffraction · 3 distinct chains · 32% helix, 22% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AReverse transcriptase (EC 2.7.7.49)protein24232% helix, 22% strandP03355
BDNA (5'-D(*CP*TP*TP*AP*TP*(1WA)P*(1WA)P*(1WA))-3')dna8——
GDNA (5'-D(P*(IGU)P*(IGU)P*(IGU)P*AP*TP*AP*AP*G)-3')dna8——

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
11550.500.7830empty
2600.270.7310empty

Interfaces

3 interfaces between chains.

  • B–G · 349 Ų buried · 33 hydrogen bonds · nucleic-nucleic
  • A–B · 249 Ų buried · 4 hydrogen bonds · protein-nucleic
  • A–G · 200 Ų buried · 3 hydrogen bonds · protein-nucleic

Modifications

Observed in the structure: 6 modified (nucleotide modification).

Compared structures

  • 6B1R · Hydrogen Bonding Complementary, not size complementarity is key in the formation of the… · the same entry in another collection · chain A against A, TM-score 1.00

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