Figure 2.
Figure 2. Comparison of FBP11 WW1 to other Group-II/III WW
domains. (A) Alignment of four WW domains that are similar to
FBP11 WW1. The red characters show completely identical residues
among these four proteins. We used residue numbering that we had
defined previously to facilitate the comparison to other WW
domains.[4] Based on this residue numbering system, we numbered
the second Trp the 34th residue, which is the 168th in the
entire FBP11/HYPA sequence. The arrows show the positions of the
-strands
that were predicted by CSI.[21] The intervals between strands
were referred to as Loops I and II. (B) Superposition of
backbones of the Group-II/III WW domains published so far,
including the side chains of Trp12, Tyr24, and Pro37. The
orange, pink, blue, and green bonds are the NMR mean structures
of FBP11 WW1 by Pires and colleagues (PDB code: 1YWJ), FBP11 WW1
by the present authors (PDB code: 1ZR7), FBP28 WW2 (PDB code:
1E0L), and Prp40 WW1 (PDB code: 1O6W), respectively,[25][26]
corresponding to the font colors in (A). The side chain of Pro18
of FBP11 WW1 was additionally depicted. The two sides of the WW
domain sheet structure were defined, which are referred to as
the binding side and backside. The drawing and fitting of the
molecules were carried out with Swiss PDB viewer.[31] (C)
Superposition of the backbones of the FBP11 WW1 structures by
Pires and colleagues and the present authors from the different
orientation from that in (B). The color code is the same as (B).
-strands
that were predicted by CSI.[21] The intervals between strands
were referred to as Loops I and II. (B) Superposition of
backbones of the Group-II/III WW domains published so far,
including the side chains of Trp12, Tyr24, and Pro37. The
orange, pink, blue, and green bonds are the NMR mean structures
of FBP11 WW1 by Pires and colleagues (PDB code: 1YWJ), FBP11 WW1
by the present authors (PDB code: 1ZR7), FBP28 WW2 (PDB code:
1E0L), and Prp40 WW1 (PDB code: 1O6W), respectively,[25][26]
corresponding to the font colors in (A). The side chain of Pro18
of FBP11 WW1 was additionally depicted. The two sides of the WW
domain sheet structure were defined, which are referred to as
the binding side and backside. The drawing and fitting of the
molecules were carried out with Swiss PDB viewer.[31] (C)
Superposition of the backbones of the FBP11 WW1 structures by
Pires and colleagues and the present authors from the different
orientation from that in (B). The color code is the same as (B).