Dr Dietlind L. Gerloff
Assistant Professor
Location: office PSB 320
Telephone:9x4833
Email:
gerloff@soe.ucsc.edu
Web-Site:
Research
Group
WWW-page
(with link to rotation project suggestions)
C.V.
Dr
sc
nat,
Department
of
Chemistry,
ETH
Zurich
1994
Swiss
National
Science
Foundation
and
Leukemia
Society
of
America
Postdoctoral
Fellow,
Department
of
Cellular
&
Molecular
Pharmacology,
University
of
California
San
Francisco
1995-1998
Lecturer
in
Bioinformatics,
University
of
Edinburgh
1999-2006
Joined UC Santa Cruz in 2006.
Teaching 2009-2012 (main courses only)
Fall
2009:
BME110
(BIOL181)
- Computational Biology Tools
My
bioinformatics/biocomputing
group's
primary
interests are
in
the
structural/evolutionary
principles
of
interactions
between
proteins
–
but
also
in
how
an
appreciation
of
these
principles
combined
with
computer
science can
help
us
make
sense
of
the
vast
amounts
of
functional
genomics
data
that
are
being
produced
at
present.
We
are
developing
novel
approaches
to
facilitate
research
in
all
areas
of
modern
biology
by
working
at
the
interface
between
information
technology
and engineering,
structural
biochemistry,
evolutionary
biology,
and
experimental
molecular
biology.
(See
below
for
selected
publications.)
A
molecular
understanding
of
biomolecular
interactions,
and
our
ability
to
predict
them
from
sequence,
is
especially
important
for
informing
computational
efforts
in
systems
biology,
which
aim
to
understand
biology
through
modelling.
It
can
also
provide
helpful
clues
toward
resolving
other
fundamental
scientific
issues,
ranging
from
evolutionary
mechanisms
to
experimental
design
in
functional
genomics,
and
is
the
driving
force
behind
our
emphasis
on
multidisciplinary
research
strategies.
Often
target
proteins
for
individual
analyses
are
suggested
through
collaborations
with
colleagues
investigating
them
in
the
laboratory.
Even
more
important
than
the
actual
biological
insight
gained
is,
to
us,
that
we
are
working
toward
a
better
understanding
of
sequence-structure-function
relationships
in
these
cases
–
in
protein
families
that
may
have
special
features,
i.e.
are
“non-standard”
by
comparison
to
proteins
for
which
structures
have
been
solved
experimentally.
The
awareness
of,
for
example,
repetitive
structure
and
how
it
may
affect
the
results
of
standard
bioinformatics
programs,
is
important
if
these
programs
are
to
be
applied
to
a
wider
range
of
molecules
than
they
were
developed
for,
and
tested
upon
D.L. Gerloff, N. T. Woods, A. Farago, A.N.A. Monteiro (2012)
. D.T. Pathak, X. Wei, A. Bucuvalas, D.H. Haft, D.L. Gerloff, D. Wall (2012). D.A. Liberles, S.A. Teichmann et al. [NESCENT Catalysis Group on Modeling Protein Structural and Snergetic Constraints on Sequence Evolution] (2012). T. Juettemann and D. L. Gerloff (2011). F. Kippert and D. L. Gerloff (2009). A.
M.
B.
Tadeu,
S.
Ribeiro,
J.
Johnston,
I.
Goldberg,
D.
Gerloff,
W.
C.
Earnshaw
(2008).
X.
Quan,
C.
Walton,
D.
L.
Gerloff,
J.
L.
Sharman
and
D.
Robertson
(2006).
D.
L.
Gerloff,
A.
Creasey,
S.
Maslau
and
R.
Carter
(2005).
D.
C.
Soares,
D.
L.
Gerloff,
N.
R.
Syme,
A.
F.
W.
Coulson,
J.
Parkinson
and
P.
N.
Barlow
(2005).
R.
J.
Orton,
W.
I.
Sellers
and
D.
L.
Gerloff
(2004).
F.
Kippert
and
D.
L.
Gerloff
(2004).
R.
Schmid
and
D.
L.
Gerloff
(2004).
Spring
2010:
Sabbatical
(University
of
Edinburgh,
School
of
Informatics)
Spring 2011:
BME128 - Protein Engineering
Spring 2012:
BME128 - Protein Engineering (ongoing)
Research
interests
Web Resources
Selected
publications
BRCT Domains: a little more than kin, and less than kind.
FEBS Letts, accepted for publication.
Cell contact-dependent outer membrane exchange in myxobacteria: genetic determinants and mechanism.
PLoS Genetics 8, e1002626.
doi:10.1371/journal.pgen.1002626
The interface of protein structure, protein biophysics, and molecular evolution.
Protein Science
doi:10.1002/pro.2071 (online before print).
BISC: binary subcomplexes in proteins database. Nucleic Acids Res., 39, D705-711.
doi:10.1093/nar/gkq859.
Highly sensitive detection of individual HEAT
and ARM repeats with HHpred and COACH. PLoS ONE, 4, e7148.
doi:10.1371/journal.pone.0007148.
CENP-V
is
required
for
centromere
organization,
chromosome
alignment
and
cytokinesis.
EMBO
J.
27,
2510-2522.
Peer-to-peer
experimentation
in
protein
structure
prediction:
an
architecture,
experiment
and
initial
results.
International
Workshop
on
Distributed,
High-Performance
and
Grid
Computing
in
Computational
Biology
(GCCB
2006),
pp.
75-98.
Structural
models
for
the
protein
family
characterised
by
the
Pfs230
gamete
surface
protein
of
Plasmodium
falciparum.
Proc.
Natl.
Acad.
Sci.
USA
102,
13598-603.
Large-scale
modelling
as
a
route
to
multiple
surface
comparisons
of
the
CCP
module
family.
Prot.
Eng.
Des.
Sel.
18,
379-88.
YETI:
Yeast
Exploration
Tool
Integrator
(www.yeastgenomeexplorer.org - also check out our malarial genome explorer MaGnET (www.malariagenomeexplorer.org)!
Bioinformatics
20,
284-285.
Timeless
and
Armadillo
-
a
link
too
far
[comment].
Curr.
Biol.
14,
R650-R651.
Functional
properties
of
the
alternative
NADH:ubiquinone
oxidoreductase
from
E.coli
through
comparative
modelling.
FEBS
Letts.
578,
163-8