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PDBsum entry 1xhs
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Structural genomics, unknown function
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PDB id
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1xhs
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References listed in PDB file
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Key reference
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Title
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Solution nmr structure of escherichia coli ytfp expands the structural coverage of the upf0131 protein domain family.
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Authors
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J.M.Aramini,
Y.J.Huang,
G.V.Swapna,
J.R.Cort,
P.K.Rajan,
R.Xiao,
R.Shastry,
T.B.Acton,
J.Liu,
B.Rost,
M.A.Kennedy,
G.T.Montelione.
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Ref.
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Proteins, 2007,
68,
789-795.
[DOI no: ]
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PubMed id
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Abstract
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No abstract given.
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Figure 1.
Figure 1. (A) A subset of the multiple sequence alignment of
the entire UPF0131 protein domain family (Pfam release 20.0)
aligned using Clustal X.[4] Representatives from bacteria,
archaea, and eukaryotes, indicated by their Swiss-Prot IDs, are
listed in black, magenta, and green, respectively. Amino acid
residues identical or similar in 67% of the entire family are
shown in red and green, respectively; conserved residues were
colored using the BOXSHADE server. The sequence numbering for
yftP from E. coli and the secondary structural elements found in
its NMR structure described in this paper (1XHS) are shown above
the alignment. (B) Stereoview of the solution structure of ytfP
showing the backbone atom superposition of the final ensemble of
10 conformers representing the solution structure of ytfP;  -strand
elements are shown in green,  -helices
are in red. (C) Stereoview of the ribbon representation of a
representative conformer (lowest CNS energy) from the ensemble
generated using MOLMOL.[5] The secondary structural elements are
labeled.
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Figure 2.
Figure 2. (A) GRASP[29] electrostatic potential surfaces
showing the face of ytfP containing the positively charged
(blue) cavity (top) and the opposite face of the protein
(bottom). (B) Two ConSurf[30] images of ytfP based on the
multiple sequence alignment of the entire UPF0131 protein domain
family. Residue coloring, reflecting the degree of residue
conservation over the entire family, ranges from magenta (highly
conserved) to cyan (variable). (C) Ribbon diagrams of the
pairwise structural alignments of the solution structure of E.
coli ytfP (1XHS; residues 1-113), crystal structure of P.
horikoshii Y828_PYRHO (1V306; 7-116 plus C-terminal tag), and
crystal structure of M.
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The above figures are
reprinted
by permission from John Wiley & Sons, Inc.:
Proteins
(2007,
68,
789-795)
copyright 2007.
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