ProtMot, a PROTeins MOTif analysis tool.
This web site analyzes structure of proteins and output the list of hydrogen
bonding patterns network motifs.
The list of motifs, a superset of the secondary structures, is shown
both projected on the protein structure and as a network motif significance
a chart which gives the occurrences of each motif in the protein.
In publications, credits should state:
PROTeins MOTif analysis tool (2008),
Yaakov (Koby) Levy,
Uri Alon and
Selected samples of ProtMot's H-Bonding Network Motif Frequency analysis
Here we compare Hemoglobin significance profile of Maned wolf (1fhj) Deer (1hds) Human (1ird) and Horse (1iwh).
The SP of homologues protein structures is expected to be similar.
Surprisingly, the SP of Deer Hemoglobin (green, pdb 1hds, structure
solved to 1.98Å resolution), is highly different from all other
mammals (here Human, Maned wolf, and Horse are shown). Globally, the
structures of Human hemoglobin and of Deer are highly similar, with
RMSD of as low as 0.9Å.
This suggests that the structure of Deer hemoglobin has local
dissimilarities from all the others. Interestingly, a high percentage
of this structure is out of the Ramachandran allowed region (below).
Concluding, SP revealed local differences between structures, which
could be tremendous even when globally the structures seem to be