General numbering Nuclear Receptor LBD

Helix 1

is difficult to detect, Flo will not include it in her alignment

if we want we can use the following numbering

137-156

150 is the conserved E

length = 20 residues

Helix 3

328-353

350 is the conserved A (WAK)

length = 26 residues

Loop between helices 3 and 4

L341, L342, ..L346

No conserved residue is taken

length = 6 residues

Helix 4

447-458

450 is the conserved D (DQ)

length = 12 residues

Helix 5

548-560

550 is the conserved E

length = 13 residues

Beta sheet 1

B150-B155

No conserved residue considered

Length = 6 residues

Beta sheet 2

B250-B254

No conserved residue considered

Length = 5 residues

Helix 6 (if present)

647-653

650 is the conserved hydrophobic residue (628 in old numbering)

length = 7 residues

Helix 7

736-751

750 is the conserved L (741 in old numbering)

length = 15 (in case of RXR like16)

Important: 745 is now the E insertion

Loop between helices 7 and 8

L781, L782, ..L785

Length = 5 residues

Helix 8

848-859

850 is the conserved E (750 in old numbering)

length = 12 (two amino acids shorter at C terminal part of the helix compared to the previous numbering)

Helix 9

936-958

950 is the conserved L

length = 23 residues

Helix 10/11

1038-1061

1050 is conserved L

length = 24 residues

Helix 12

1245-1252

1250 is the conserved E

length = 8 residues